WO2026030470A1 - Trihydroxybenzene-containing compounds, compositions comprising trihydroxybenzene-containing compounds and related uses - Google Patents

Trihydroxybenzene-containing compounds, compositions comprising trihydroxybenzene-containing compounds and related uses

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Publication number
WO2026030470A1
WO2026030470A1 PCT/US2025/039918 US2025039918W WO2026030470A1 WO 2026030470 A1 WO2026030470 A1 WO 2026030470A1 US 2025039918 W US2025039918 W US 2025039918W WO 2026030470 A1 WO2026030470 A1 WO 2026030470A1
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compound
independently
composition
aspects
nucleic acid
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French (fr)
Inventor
Hua Wang
Lijun Huang
Gopi Nath VEMURI
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Poseida Therapeutics Inc
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Poseida Therapeutics Inc
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Publication of WO2026030470A1 publication Critical patent/WO2026030470A1/en
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    • CCHEMISTRY; METALLURGY
    • C07ORGANIC CHEMISTRY
    • C07CACYCLIC OR CARBOCYCLIC COMPOUNDS
    • C07C69/00Esters of carboxylic acids; Esters of carbonic or haloformic acids
    • C07C69/003Esters of saturated alcohols having the esterified hydroxy group bound to an acyclic carbon atom
    • CCHEMISTRY; METALLURGY
    • C07ORGANIC CHEMISTRY
    • C07CACYCLIC OR CARBOCYCLIC COMPOUNDS
    • C07C309/00Sulfonic acids; Halides, esters, or anhydrides thereof
    • C07C309/01Sulfonic acids
    • C07C309/02Sulfonic acids having sulfo groups bound to acyclic carbon atoms
    • C07C309/03Sulfonic acids having sulfo groups bound to acyclic carbon atoms of an acyclic saturated carbon skeleton
    • C07C309/07Sulfonic acids having sulfo groups bound to acyclic carbon atoms of an acyclic saturated carbon skeleton containing oxygen atoms bound to the carbon skeleton
    • C07C309/09Sulfonic acids having sulfo groups bound to acyclic carbon atoms of an acyclic saturated carbon skeleton containing oxygen atoms bound to the carbon skeleton containing etherified hydroxy groups bound to the carbon skeleton
    • C07C309/10Sulfonic acids having sulfo groups bound to acyclic carbon atoms of an acyclic saturated carbon skeleton containing oxygen atoms bound to the carbon skeleton containing etherified hydroxy groups bound to the carbon skeleton with the oxygen atom of at least one of the etherified hydroxy groups further bound to an acyclic carbon atom
    • CCHEMISTRY; METALLURGY
    • C07ORGANIC CHEMISTRY
    • C07CACYCLIC OR CARBOCYCLIC COMPOUNDS
    • C07C69/00Esters of carboxylic acids; Esters of carbonic or haloformic acids
    • C07C69/76Esters of carboxylic acids having a carboxyl group bound to a carbon atom of a six-membered aromatic ring
    • C07C69/84Esters of carboxylic acids having a carboxyl group bound to a carbon atom of a six-membered aromatic ring of monocyclic hydroxy carboxylic acids, the hydroxy groups and the carboxyl groups of which are bound to carbon atoms of a six-membered aromatic ring
    • CCHEMISTRY; METALLURGY
    • C07ORGANIC CHEMISTRY
    • C07JSTEROIDS
    • C07J17/00Normal steroids containing carbon, hydrogen, halogen or oxygen, having an oxygen-containing hetero ring not condensed with the cyclopenta(a)hydrophenanthrene skeleton
    • C07J17/005Glycosides
    • CCHEMISTRY; METALLURGY
    • C07ORGANIC CHEMISTRY
    • C07JSTEROIDS
    • C07J9/00Normal steroids containing carbon, hydrogen, halogen or oxygen substituted in position 17 beta by a chain of more than two carbon atoms, e.g. cholane, cholestane, coprostane
    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61KPREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
    • A61K31/00Medicinal preparations containing organic active ingredients
    • A61K31/21Esters, e.g. nitroglycerine, selenocyanates
    • A61K31/215Esters, e.g. nitroglycerine, selenocyanates of carboxylic acids
    • A61K31/216Esters, e.g. nitroglycerine, selenocyanates of carboxylic acids of acids having aromatic rings, e.g. benactizyne, clofibrate
    • AHUMAN NECESSITIES
    • A61MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61PSPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P1/00Drugs for disorders of the alimentary tract or the digestive system
    • A61P1/16Drugs for disorders of the alimentary tract or the digestive system for liver or gallbladder disorders, e.g. hepatoprotective agents, cholagogues, litholytics

Definitions

  • the present invention relates generally to trihydroxybenzene-containing compounds, compositions comprising the trihydroxybenzene-containing compounds, and the use of these compositions in gene delivery.
  • BACKGROUND [0003] There has been a long-felt but unmet need in the art for compositions and methods for delivering nucleic acids to cells and for genetically modifying cells in vivo, ex vivo and in vitro. Widely accepted gene delivery and genetic modification techniques, such as the use of viral vectors, including AAVs, can cause acute toxicity and harmful side-effects in patients.
  • the present disclosure provides improved compositions, methods and kits for the delivery of nucleic acids to various types of cells, including hepatocytes, in vivo, ex vivo and in vitro.
  • the present disclosure provides improved lipid nanoparticle compositions and methods of using the same. These lipid nanoparticle compositions and methods allow for the delivery of nucleic acids to cells with high efficiency and low toxicity.
  • the compositions and methods of the present disclosure have wide applicability to a diverse number of fields, including gene therapy.
  • novel compounds are a compound of Formula (I): Formula (I) or a salt thereof, wherein: A is:
  • LNPs novel lipid nanoparticles
  • the novel compound is a compound of Formula (I).
  • pharmaceutical compositions comprising a composition of the present disclosure and at least one pharmaceutically-acceptable excipient or diluent.
  • methods of delivering at least one nucleic acid to at least one cell comprising contacting the at least one cell with at least one composition of the present disclosure.
  • provided are methods of genetically modifying at least one cell comprising contacting the at least one cell with at least one composition of the present disclosure.
  • methods of treating at least one disease or disorder in a subject in need thereof comprising administering to the subject at least one therapeutically effective amount of at least one composition of the present disclosure.
  • methods of delivering at least one nucleic acid to at least one cell comprising contacting the at least one cell with at least one composition of the present disclosure.
  • FIG.1 shows whole body luminescence imaging (BLI) measurements at 48 hours post- administration of mice treated with LNP compositions of the present disclosure either comprising, or lacking, at least one compound of Formula (I).
  • FIG.2 shows BLI measurements of anesthetized mice at 48 hours post-administration of mice treated with LNP compositions of the present disclosure either comprising, or lacking, at least one compound of Formula (I).
  • the present disclosure provides novel trihydroxybenzene-containing compounds, novel lipid nanoparticle compositions (LNPs) comprising the novel compounds, methods for preparing the LNPs, and methods for using same.
  • LNPs novel lipid nanoparticle compositions
  • the compositions and methods of the present limiting disclosure can be used for gene delivery.
  • the compositions and methods of the present disclosure can be broadly used to deliver a nucleic acid to liver cells, in vivo, ex vivo or in vitro, for the treatment of certain diseases and disorders, including, but not limited to liver disorders.
  • compositions and methods of the present disclosure can be broadly used to deliver a nucleic acid to induce the expression of a secreted therapeutic protein.
  • compositions of the Present Disclosure—Lipid Nanoparticles The present disclosure provides a composition comprising at least one lipid nanoparticle comprising at least one compound of the present disclosure and at least one cationic lipid.
  • a lipid nanoparticle can further comprise at least one nucleic acid molecule.
  • a lipid nanoparticle can further comprise at least one structural lipid.
  • a lipid nanoparticle can further comprise at least one phospholipid.
  • a lipid nanoparticle can further comprise at least one PEGylated lipid.
  • A is: , , , , , , , , , or ; each B is independently or in which * indicates attachment to A and ** indicates attachment to C, e ach C is independently , C6 – C18 alkyl, or , each X is independently O, NH, or absent, each y is independently an integer ranging from 0 to 3, each R 1 is independently C 1 – C 10 alkyl or absent, m is an integer ranging from 4 to 7; n is an integer ranging from 3 to 8, and p is an integer ranging from 5 to 8, wherein when A is , , , or , at least one occurrence of C is C6 – C18 alkyl or , wherein when A is and
  • each X is independently O. [0023] In some aspects, each X is independently NH. [0024] In some aspects, each X is independently NH or absent. [0025] In some aspects, each B is independently . [0026] In some aspects, each B is independently or . [0027] In some aspects, each B is independently . [0028] In some aspects, each B is independently or . [0029] In some aspects, each B is independently . [0030] In some aspects, A is . [0031] In some aspects, A is selected from: , , , , or . [0032] In some aspects, each C is independently . [0033] In some aspects, A is and each C is independently or C 6 – C 18 alkyl, wherein at least one occurrence of C is C 6 – C 18 alkyl.
  • A is and each C is independently or wherein at least one occurrence of C is .
  • A is and each C is independently or C 6 – C 18 alkyl, wherein at least one occurrence of C is C 6 – C 18 alkyl.
  • A is and each C is independently or , wherein at least one occurrence of C is .
  • A is , m is 4, and each C is independently or , wherein at least one occurrence of C is .
  • the compound of Formula (I) is selected from: , , , ,
  • the compounds of any one of the formulas disclosed herein and any pharmaceutically acceptable salts thereof comprise stereoisomers, mixtures of stereoisomers, polymorphs of all isomeric forms of said compounds.
  • compounds disclosed herein may be presented without specified configuration (e.g., without specified stereochemistry). Such presentation intends to encompass all available isomers, tautomers, regioisomers, and stereoisomers of the compound. In some embodiments, the presentation of a compound herein without specified configuration intends to refer to each of the available isomers, tautomers, regioisomers, and stereoisomers of the compound, or any mixture thereof.
  • a salt for example, can be formed between an anion and a positively charged group (e.g., amino) on a substituted compound disclosed herein.
  • Suitable anions include chloride, bromide, iodide, sulfate, bisulfate, sulfamate, nitrate, phosphate, citrate, methanesulfonate, trifluoroacetate, glutamate, glucuronate, glutarate, malate, maleate, succinate, fumarate, tartrate, tosylate, salicylate, lactate, naphthalenesulfonate, and acetate (e.g., trifluoroacetate).
  • a “-” is used to indicate linkage between two variables (e.g., A-B), the linkage could be one or more covalent bonds.
  • suitable core compounds include saturated or unsaturated, linear, branched, or cyclic carbon polyols; carbohydrate compounds including monosaccharides, disaccharides, oligosaccharides, cyclodextrins, chitosan; linear or branched polyethylene amine, dendrimers, and poly L lysine.
  • an LNP of the present disclosure can comprise at least about 2.5%, or at least about 5%, or at least about 7.5%, or at least about 10%, or at least about 12.5%, or at least about 15%, or at least about 17.5%, or at least about 20%, or at least about 22.5%, or at least about 25%, or at least about 27.5%, or at least about 30%, or at least about 32.5%, or at least about 35%, or at least about 37.5%, or at least about 40%, or at least about 42.5%, or at least about 45%, or at least about 47.5%, or at least about 50%, or at least about 52.5%, or at least about 55%, or at least about 57.5% or at least about 60%, or at least about 62.5%, or at least about 65%, or at least about 67.5%, or at
  • the cationic lipid is COMPOUND NO.37, comprising the following structure: [0109]
  • the synthetic route for COMPOUND NO.37 is shown in General Scheme E.1. This two-step sequence begins with an esterification reaction between trans-4-pentylcyclohexane carboxylic acid and hydroxy substituted alkyl bromides of different lengths (C3, C5, and C7) catalyzed by N-Ethyl-N′-(3-dimethylaminopropyl)carbodiimide hydrochloride (EDC-HCl) and N,N-Dimethylpyridin-4-amine (DMAP).
  • EDC-HCl N-Ethyl-N′-(3-dimethylaminopropyl)carbodiimide hydrochloride
  • DMAP N,N-Dimethylpyridin-4-amine
  • the corresponding ester which bears a bromide as a functional handle reacts with hydroxy substituted amines (H n , where
  • an LNP of the present disclosure can comprise at least about 2.5%, or at least about 5%, or at least about 7.5%, or at least about 10%, or at least about 12.5%, or at least about 15%, or at least about 17.5%, or at least about 20%, or at least about 22.5%, or at least about 25%, or at least about 27.5%, or at least about 30%, or at least about 32.5%, or at least about 35%, or at least about 37.5%, or at least about 40%, or at least about 42.5%, or at least about 45%, or at least about 47.5%, or at least about 50%, or at least about 52.5%, or at least about 55%, or at least about 57.5% or at least about 60%, or at least about 62.5%, or at least about 65%, or at least about 67.5%, or at least about 70% of COMPOUND NO.37 by moles.
  • an LNP can further comprise at least about 2.5%, or at least about 5%, or at least about 7.5%, or at least about 10%, or at least about 12.5%, or at least about 15%, or at least about 17.5%, or at least about 20%, or at least about 22.5%, or at least about 25%, or at least about 27.5%, or at least about 30%, or at least about 32.5%, or at least about 35%, or at least about 37.5%, or at least about 40%, or at least about 42.5%, or at least about 45%, or at least about 47.5%, or at least about 50%, or at least about 52.5%, or at least about 55%, or at least about 57.5% or at least about 60%, or at least about 62.5%, or at least about 65%, or at least about 67.5%, or at least about 70% of at least one structural lipid by moles.
  • a structural lipid can be a steroid. In some aspects, a structural lipid can be a sterol. In some aspects, a structural lipid can comprise cholesterol. In some aspects, a structural lipid can comprise ergosterol. In some aspects, a structural lipid can be a phytosterol. [0115] In some aspects, the at least one structural lipid is a mixture of two structural lipids.
  • an LNP can further comprise at least about 2.5%, or at least about 5%, or at least about 7.5%, or at least about 10%, or at least about 12.5%, or at least about 15%, or at least about 17.5%, or at least about 20%, or at least about 22.5%, or at least about 25%, or at least about 27.5%, or at least about 30%, or at least about 32.5%, or at least about 35%, or at least about 37.5%, or at least about 40%, or at least about 42.5%, or at least about 45%, or at least about 47.5%, or at least about 50%, or at least about 52.5%, or at least about 55%, or at least about 57.5% or at least about 60%, or at least about 62.5%, or at least about 65%, or at least about 67.5%, or at least about 70% of at least one phospholipid by moles.
  • phospholipid is used in its broadest sent to refer to any amphiphilic molecule that comprises a polar (hydrophilic) headgroup comprising phosphate and two hydrophobic fatty acid chains.
  • a phospholipid can comprise dioleoylphosphatidylethanolamine (DOPE).
  • DOPE dioleoylphosphatidylethanolamine
  • a phospholipid can comprise 1,2- Distearoyl-sn-glycero-3-phosphocholine (DSPC).
  • a phospholipid can comprise 1,2-Dioleoyl-sn-glycero-3-phosphocholine (DOPC).
  • a phospholipid can comprise DPPC (1,2-Dipalmitoyl-sn-glycero-3-phosphocholine).
  • a phospholipid can comprise DDPC (1,2-Didecanoyl-sn-glycero-3-phosphocholine), DEPA-NA (1,2-Dierucoyl-sn-glycero-3-phosphate (Sodium Salt)), DEPC (1,2-Dierucoyl-sn-glycero-3- phosphocholine), DEPE (1,2-Dierucoyl-sn-glycero-3-phosphoethanolamine), DEPG-NA (1,2- Dierucoyl-sn-glycero-3[Phospho-rac-(1-glycerol) (Sodium Salt)), DLOPC (1,2-Dilinoleoyl-sn- glycero-3-phosphocholine), DLPA-NA (1,2-Dilauroyl-sn-glycero-3-phosphate (Sodium Salt)), DL
  • an LNP can further comprise at least about 0.25%, or at least about 0.5%, or at least about 0.75%, or at least about 1.0%, or at least about 2.5%, or at least about 5%, or at least about 7.5%, or at least about 10% PEGylated lipid by moles.
  • PEGylated lipid is used to refer to any lipid that is modified (e.g. covalently linked to) at least one polyethylene glycol molecule.
  • a PEGylated lipid can comprise 1,2-dimyristoyl-rac-glycero-3-methoxypolyethylene glycol-2000, hereafter referred to as DMG-PEG2000 or PEG-DMG.
  • the at least one PEGylated lipid is a mixture of two PEGylated lipids.
  • Nucleic Acid Molecules [0124]
  • a lipid nanoparticle of the present disclosure can further comprise at least one nucleic acid.
  • a lipid nanoparticle can comprise a plurality of nucleic acid molecules.
  • the at least one nucleic acid or the plurality of nucleic acid molecules can be formulated in a lipid nanoparticle.
  • a lipid nanoparticle can comprise at least one nucleic acid, at least one compound of the present disclosure, at least one cationic lipid, at least one structural lipid, at least one phospholipid, and at least one PEGylated lipid.
  • the at least one nucleic acid is a DNA molecule.
  • the at least one DNA molecule is a DoggyBone® DNA molecule.
  • the at least one DNA molecule is a DNA nanoplasmid.
  • the at least one nucleic acid is an RNA molecule.
  • the RNA molecule is an mRNA molecule. In some aspects, the mRNA molecule further comprises a 5’-CAP. In some aspects, all of the cytidine residues in an mRNA molecule can be 5- methylcytidine.
  • the at least one RNA molecule is a guide RNA (gRNA) molecule.
  • gRNA guide RNA
  • an at least one nucleic acid can comprise both mRNA molecules and guide RNA (gRNA) molecules. That is, the LNPs of the present disclosure can comprise both mRNA molecules and gRNA molecules.
  • the mRNA molecules comprise at least one nucleic acid sequence that encodes a fusion protein, wherein the fusion protein comprises: (i) an inactivated Cas9 (dCas9) protein or an inactivated nuclease domain thereof; and (ii) a Clo051 protein or a nuclease domain thereof, and wherein the gRNA molecules encode guide RNA sequence targeting one or more specific genomic loci.
  • the fusion protein can be a Cas- CLOVER protein.
  • the gRNA molecules can target the psk9 gene.
  • the ratio of mRNA:gRNA can be about 1:2, or about 1:3, or about1:4, or about 1:5, or about 1:6, or about 1:7, or about 1:8, or about 1:9, or about 1:10 or about 1:1, or about 2:1, or about 3:1, or about 4:1, or about 5:1, or about 6:1, or about 7:1, or about 8:1, or about 9:1 or about 10:1.
  • an at least one nucleic acid can comprise at least one RNA molecule and at least one DNA molecule. That is, the LNPs of the present disclosure can comprise both RNA molecules and DNA molecules.
  • the LNPs of the present disclosure can comprise both RNA molecules and DNA molecules, wherein the RNA molecules comprise at least one nucleic acid sequence that encodes a transposase and wherein the DNA molecules comprise at least one nucleic acid sequence that comprises a transposon.
  • the transposase can be any of the transposases described herein.
  • the transposon can be a transposon comprising at least one nucleic acid sequence encoding a FVIII polypeptide.
  • the transposon can be a transposon comprising at least one nucleic acid sequence encoding a human propionyl- CoA carboxylase subunit alpha (PCCA) polypeptide.
  • RNA e.g. mRNA
  • DNA DNA
  • the ratio of RNA to DNA (RNA:DNA) in the LNPs can be about 1:2, or about 1:3, or about1:4, or about 1:1, or about 2:1, or about 3:1, or about 4:1, or about 5:1, or about 6:1, or about 7:1, or about 8:1, or about 9:1 or about 10:1.
  • a lipid nanoparticle can comprise lipid and nucleic acid at a specified ratio (weight/weight).
  • a lipid nanoparticle comprising at least one nucleic acid can comprise lipid and nucleic acid at a ratio of about 5:1 to about 15:1, or about 10:1 to about 20:1, or about 15:1 to about 25:1, or about 20:1 to about 30:1, or about 25:1 to about 35:1 or about 30:1 to about 40:1, or about 35:1 to about 45:1, or about 40:1 to about 50:1, or about 45:1 to about 55:1, or about 50:1 to about 60:1, or about 55:1 to about 65:1, or about 60:1 to about 70:1, or about 65:1 to about 75:1, or about 70:1 to about 80:1, or about 75:1 to about 85:1, or about 80:1 to about 90:1, or about 85:1 to about 95:1, or about 90:1 to about 100:1, or about 95:1 to about 105:1, or about 100:1 to about 110:1, or about 105:1 to about 115:1, or about 110:1
  • a lipid nanoparticle comprising at least one nucleic acid can comprise lipid and nucleic acid at a ratio of about 5:1, or about 10:1, or about 15:1, or about 20:1, or about 25:1, or about 30:1, or about 35:1, or about 40:1, or about 45:1, or about 50:1, or about 55:1, or about 60:1, or about 65:1, or about 70:1, or about 75:1, or about 80:1, or about 85:1, or about 90:1, or about 95:1, or about 100:1, or about 105:1, or about 110:1, or about 115:1, or about 120:1, or about 125:1, or about 130:1, or about 135:1, or about 140:1, or about 145:1, or about 150:1, lipid:nucleic acid, weight/weight.
  • a lipid nanoparticle comprising at least one nucleic acid can comprise lipid and nucleic acid at a ratio of about 10:1, or about 25:1, or about 40:1, lipid:nucleic acid, weight/weight.
  • a lipid nanoparticle comprising at least one nucleic acid can comprise lipid and nucleic acid at a ratio of about 20:1, or about 40:1, or about 60:1, or about 80:1, or about 120:1 lipid:nucleic acid, weight/weight.
  • the ratio of lipid to nucleic acid in the nanoparticle can be about 30:1 to about 50:1 (w/w), or about 35:1 to about 45:1 (w/w). In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 40:1 (w/w). [0140] In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 40:1 to about 60:1 (w/w), or about 45:1 to about 55:1 (w/w). In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 50:1 (w/w).
  • the ratio of lipid to nucleic acid in the nanoparticle can be about 50:1 to about 70:1 (w/w), or about 55:1 to about 65:1 (w/w). In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 60:1 (w/w). [0142] In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 70:1 to about 90:1 (w/w), or about 75:1 to about 85:1 (w/w). In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 80:1 (w/w).
  • the ratio of lipid to nucleic acid in the nanoparticle can be about 90:1 to about 110:1 (w/w), or about 95:1 to about 105:1 (w/w). In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 100:1 (w/w). [0144] In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 110:1 to about 130:1 (w/w), or about 115:1 to about 125:1 (w/w). In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 120:1 (w/w).
  • a lipid nanoparticle comprising at least one nucleic acid can comprise a compound of Formula (I) and nucleic acid at a specified ratio (weight/weight).
  • a lipid nanoparticle comprising a compound of Formula (I) and at least one nucleic acid can comprise a compound of Formula (I) and nucleic acid at a ratio of about 0.1:1, or about 0.15:1, or about 0.2:1, or about 0.25:1, or about 0.3:1, or about 0.35:1, or about 0.4:1, or about 0.45:1, or about 0.5:1, or about 1:1, or about 1.5:1, or about 2:1, or about 2.5:1, or about 3:1, or about 3.5:1, or about 4:1, or about 4.5:1, or about 5:1, or about 5.5:1, or about 6:1, or about 6.5:1, or about 7:1, or about 7.5:1, or about 8:1, or about 8.5:1, or about 9:1, or about 9.5:1, or about 10:1, or about
  • the at least one nucleic acid can comprise DNA.
  • a lipid nanoparticle can comprise a compound of Formula (I) and lipid at a specified ratio (weight/weight).
  • a lipid nanoparticle can comprise a compound of Formula (I) and lipid at a ratio of about 0.08:1, 0.1:1, or about 0.17:1, or about 0.2:1 or about 0.25:1, or about 0.3:1 compound of Formula (I):lipid, weight/weight.
  • an LNP can further comprise at least one targeting ligand.
  • a lipid nanoparticle can comprise at least one nucleic acid, at least one compound of the present disclosure, at least one cationic lipid, at least one structural lipid, at least one phospholipid, and at least one PEGylated lipid, and at least one targeting ligand.
  • an LNP of the present disclosure can further comprise at least about 0.05%, or at least about 0.1%, or at least about 0.15%, or at least about 0.2%, or at least about 0.25%, or at least about 0.3%, or at least about 0.35%, or at least about 0.4%, or at least about 0.45%, or at least about 0.5%, or at least about 0.55%, or at least about 0.6%, or at least about 0.65%, or at least about 0.7%, or at least about 0.75%, or at least about 0.8%, or at least about 0.85%, or at least about 0.9%, or at least about 0.95%, or at least about 1.0%, or at least about 1.1%, or at least about 1.2%, or at least about 1.3%, or at least about 1.4%, or at least about 1.5%, or at least about 1.6%, or at least about 1.7%, or at least about 1.8%, or at least about 1.9%, or at least about 2.0% of at least one targeting ligand by moles.
  • a targeting ligand may be any ligand that provides an enhanced affinity for a selected target, e.g., molecule, cell or cell type, e.g., a cellular or organ compartment, tissue, organ or region of the body, as, e.g., compared to a species absent such a ligand.
  • a composition comprising a targeting lipid is well-tolerated and provides an adequate therapeutic index, such that patient treatment with an effective dose of the composition is associated with an improved toxicity and/or risk profile to the patient, compared to patient treatment with an effective dose of a composition that does not comprise a targeting ligand.
  • a targeting ligand provides an enhanced affinity for the liver or liver cells, such as hepatocytes.
  • a non-limiting example of a targeting ligand with enhanced affinity for the liver or liver cells is GalNac (n-acetyl-galactosamine).
  • the invention provides LNP compositions comprising a targeting ligand comprising GalNac.
  • a targeting ligand comprising GalNac can be a pegylated GalNac molecule.
  • a pegylated GalNac molecule can be Tri-GalNac-PEG2000-DSPE (referred to herein as “GalNac-PEG”), and which structure is shown below: .
  • GalNac-PEG Tri-GalNac-PEG2000-DSPE
  • the present disclosure provides LNPs comprising GalNac-PEG.
  • a targeting ligand can also include targeting groups, for example a group of tissue targeting agents.
  • a non-limiting example of a targeting group can be multivalent GalNac molecule.
  • the invention provides LNP compositions comprising a targeting ligand comprising multivalent GalNac.
  • a non-limiting example of a multivalent GalNac molecule is GalNac-PEG.
  • a targeting ligand can comprise DSPE (1, 2-Distearoyl-sn-glycero-3- phosphoethanolamine).
  • the invention provides LNP compositions comprising a targeting ligand comprising DSPE.
  • the DSPE can be pegylated.
  • a targeting ligand comprising DSPE can be 1,2-distearoyl-sn-glycero-3- phosphoethanolamine-N-[methoxy(polyethylene glycol)-2000], also referred to herein as DSPE- PEG2000 or DSPE-PEG, and whose structure is shown below: .
  • compositions of the Present Disclosure provide a pharmaceutical composition comprising at least one lipid nanoparticle of the present disclosure.
  • the present disclosure provides a pharmaceutical composition comprising at least one first nanoparticle of the present disclosure and at least one second nanoparticle of the present disclosure, wherein the at least one first nanoparticle comprises at least one nucleic acid molecule encoding at least one transposase, wherein the at least one second nanoparticle comprises at least one nucleic acid molecule encoding at least one transposon.
  • the at least one nucleic acid molecule encoding at least one transposase can be an RNA molecule (e.g.
  • the present disclosure provides a composition comprising at least one cell that has been contacted by at least one nanoparticle of the present disclosure. In some aspects, the present disclosure provides a composition comprising at least one cell that has been genetically modified using at least one nanoparticle of the present disclosure. In some aspects, the present disclosure provides a composition comprising at least one cell that has been genetically modified using any method of the present disclosure.
  • the present disclosure provides a pharmaceutical composition comprising at least one cell that has been contacted by at least one nanoparticle of the present disclosure. In some aspects, the present disclosure provides a pharmaceutical composition comprising at least one cell that has been genetically modified using at least one nanoparticle of the present disclosure. In some aspects, the present disclosure provides a pharmaceutical composition comprising at least one cell that has been genetically modified using any method of the present disclosure.
  • Methods of the Present Disclosure [0164] The present disclosure provides a method of delivering at least one nucleic acid to at least one cell comprising contacting the at least one cell with at least one composition of the present disclosure.
  • compositions and kits of the present disclosure provides a method of delivering at least one nucleic acid to at least one cell comprising contacting the at least one cell with at least one nanoparticle of the present disclosure.
  • at least one cell can be a liver cell.
  • a liver cell can include, but is not limited to, a hepatocyte, a hepatic stellate cell, Kupffer cell or a liver sinusoidal endothelial cell.
  • a cell can be in vivo, ex vivo or in vitro. In some aspects, any of the methods of the present disclosure can be applied in vivo, ex vivo or in vitro.
  • the present disclosure provides a method of genetically modifying at least one cell comprising contacting the at least one cell with at least one composition of the present disclosure.
  • the present disclosure provides a method of genetically modifying at least one cell comprising contacting the at least one cell with at least one nanoparticle of the present disclosure.
  • genetically modifying a cell can comprise delivering at least one exogenous nucleic acid to the cell such that the cell expresses at least one protein that the cell otherwise would not normally express, or such that the at least one cell expresses at least one protein at a level that is higher than the level that the cell would otherwise normally express the at least one protein, or such that the cell expresses at least one protein at a level that is lower than the level that the cell would otherwise normally express.
  • genetically modifying a cell can comprise delivering at least one exogenous nucleic to the cell such that at least one exogenous nucleic acid is integrated into the genome of the at least one cell.
  • the methods of the present disclosure can yield a plurality of cells, wherein at least about 1%, or at least about 2%, or at least about 3%, or at least about 4%, or at least about 5%, or at least 10%, or at least 15%, or at least 20%, or at least 25%, or at least 30%, or at least 35%, or at least 40%, or at least 45%, or at least 50%, or at least 55%, or at least 60%, or at least about 65%, or at least about 70%, or at least about 75%, or at least about 80%, or at least about 85%, or at least about 90%, or at least about 95%, or at least about 99% of the cell in the plurality express at least one protein that was encoded in at least one nucleic acid that was delivered to the plurality of cells via a nanoparticle of the present disclosure.
  • the present disclosure provides a method of treating at least one disease in a subject, the method comprising administering to the subject at least one therapeutically effective amount of at least one composition of the present disclosure comprising at least one nucleic acid encoding a therapeutic protein.
  • the present disclosure provides a method of treating at least one disease in a subject, the method comprising administering a therapeutically effective amount of at least one nanoparticle of the present disclosure comprising at least one nucleic acid encoding a therapeutic protein.
  • the present disclosure provides a method of treating at least one disease in a subject, the method comprising administering a therapeutically effective amount of cells, wherein the cells have been contacted by at least one nanoparticle of the present disclosure comprising at least one nucleic acid encoding a therapeutic protein.
  • the present disclosure provides a method of treating at least one disease in a subject, the method comprising administering a therapeutically effective amount of cells, wherein the cells have been genetically modified using the compositions and/or methods of the present disclosure.
  • the disclosure provides methods for the treatment of a disease or disorder in a cell, tissue, organ, animal, or subject, comprising administering or contacting the cell, tissue, organ, animal, or subject with a therapeutic effective amount of a composition disclosed herein.
  • the subject is a mammal.
  • the subject is human.
  • the terms “subject” and “patient” are used interchangeably herein.
  • the disclosure provides methods of treating at least one disease or disorder in a subject, comprising administering to the subject at least one therapeutically effective amount of at least one composition disclosed herein comprising at least one nucleic acid encoding a therapeutic protein.
  • the LNP compositions of the present disclosure target liver cells more effectively than other cells, thus reducing off-target effects associated with other delivery compositions.
  • the LNP compositions provided herein that comprise a targeting ligand result in less cytokine release than the same LNP composition not comprising the targeting ligand.
  • Cytokine release may be measured using any suitable method known in the art or described herein. For example, cytokine levels may be determined in the blood of a subject receiving the LNP composition comprising the targeting ligand using enzyme-linked immunosorbent assays (ELISAs). The cytokine levels may then be compared to pre-treatment baseline levels.
  • the disclosure provides a method for modulating or treating at least one malignant disease or disorder in a cell, tissue, organ, animal or subject.
  • the at least one disease can be a malignant disease, including, but not limited to, cancer.
  • the at least one disease can be Hemophilia A or Hemophilia B.
  • the at least one disease can be a metabolic liver disorder (MLD).
  • the at least one disease can be a urea cycle disorder (UCD).
  • An MLD and/or UCD can include, but is not limited to, N- Acetylglutamate Synthetase (NAGS) Deficiency, Carbamoylphosphate Synthetase I Deficiency (CPSI Deficiency), Ornithine Transcarbamylase (OTC) Deficiency, Argininosuccinate Synthetase Deficiency (ASSD) (Citrullinemia I), Citrin Deficiency (Citrullinemia II), Argininosuccinate Lyase Deficiency (Argininosuccinic Aciduria), Arginase Deficiency (Hyperargininemia), Ornithine Translocase Deficiency (HHH Syndrome), methylmalonic acidemia (MMA) or any combination thereof.
  • NAGS N- Acetylglutamate Synthetase
  • CPSI Deficiency Carbamoylphosphate Synthetase I
  • Methods of the disclosure may be used to treat a disease or disorder by use of a therapeutic transgene encoding for an exogenous nucleic acid sequence or exogenous amino acid sequence.
  • the transgene is delivered to a target cell to replace or repair a mutated gene.
  • Diseases that may be treated with such methods are generally caused by a mutation in a gene that results in no protein being expressed or non-functional proteins being expressed.
  • therapeutic transgenes that can be delivered using the compositions disclosed herein include: Beta-Thalassemia (HBB T87Q, BCL11A shRNA, IGF2BP1), Sickle Cell Disease (HBB T87Q, BCL11A shRNA, IGF2BP1), Hemophilia A (Factor VIII), Hemophilia B (Factor IX), X-linked Severe Combined Immunodeficiency (Interleukin 2 receptor gamma (IL2RG)), Hypophosphatasia (Tissue Non-specific Alkaline Phosphatase (TNAP)), Osteopetrosis (TCIRG1), Glycogen Storage Disease Type II (Pompe Disease) (Alpha Glucosidase (GAA)), Alpha-Galactosidase A Deficiency (Fabry disease) (Alpha-galactosidase A (GLA)), Mucopolysaccharidosis Type I (MPS I) (Alpha-L-iduroni
  • Methods of the present disclosure can optionally further comprise co-administration or combination therapy for treating such diseases or disorders, wherein the administering of any composition or pharmaceutical composition disclosed herein, further comprises administering, before concurrently, and/or after, at least one chemotherapeutic agent (e.g., an alkylating agent, a mitotic inhibitor, a radiopharmaceutical).
  • chemotherapeutic agent e.g., an alkylating agent, a mitotic inhibitor, a radiopharmaceutical.
  • Nucleic Acid Molecules can be a synthetic nucleic acid molecule.
  • a nucleic acid molecule can be a non-naturally occurring nucleic acid molecule.
  • a non-naturally occurring nucleic acid molecule can comprise at least one non- naturally occurring nucleotide.
  • the at least one non-naturally occurring nucleotide can be any non-naturally occurring nucleotide known in the art.
  • a nucleic acid molecule can be a modified nucleic acid molecule.
  • a modified nucleic acid molecule can comprise at least one modified nucleotide.
  • the at least one modified nucleotide can be any modified nucleic acid known in the art.
  • an mRNA molecule can be capped using any method and/or capping moiety known in the art.
  • An mRNA molecule can be capped with m7G(5’)ppp(5’)G moiety.
  • a m7G(5’)ppp(5’)G moiety is also referred to herein as a “Cap0”.
  • An mRNA molecule can be capped with a CleanCap® moiety.
  • a CleanCap® moiety can comprise a m7G(5')ppp(5')(2'OMeA) (CleanCap® AG) moiety.
  • a CleanCap® moiety can comprise a m7G(5')ppp(5')(2'OMeG) (CleanCap® GG) moiety.
  • An mRNA molecule can be capped with an anti-reverse cap analog (ARCA®) moiety.
  • An ARCA® moiety can comprise a m7(3’-O- methyl)G(5’)ppp(5’)G moiety.
  • An mRNA molecule can be capped with a CleanCap® 3’OMe moiety (CleanCap®+ARCA®).
  • an mRNA molecule can comprise at least one modified nucleic acid.
  • the at least one modified nucleic acid can comprise 5-methoxyuridine (5moU).
  • At least about 5%, or at least about 10%, or at least about 15%, or at least about 20%, or at least about 25%, or at least about 30%, or at least about 35%, or at least about 40%, or at least about 45%, or at least about 50%, or at least about 55%, or at least about 60%, or at least about 65%, or at least about 70%, or at least about 75%, or at least about 80%, or at least about 85%, at least about 90%, or at least about 95%, or at least about 99% of the uridine bases in an mRNA molecule are 5-methoxyuridine bases. In some aspects, all of the uridine bases in an mRNA molecule are 5-methoxyuridine bases.
  • an mRNA molecule can comprise at least one modified nucleic acid.
  • the at least one modified nucleic acid can comprise N 1 -methylpseudouridine (me 1 ⁇ ).
  • an mRNA molecule can comprise at least one modified nucleic acid.
  • the at least one modified nucleic acid can comprise pseudouridine ( ⁇ ).
  • an mRNA molecule can comprise at least one modified nucleic acid.
  • the at least one modified nucleic acid can comprise 5-methylcytidine (5-MeC).
  • a nucleic acid molecule can comprise a DNA molecule.
  • a lipid nanoparticle can comprise a DNA molecule.
  • the DNA molecule can be a circular DNA molecule, such as, but not limited to, a DNA plasmid or DNA nanoplasmid.
  • a lipid nanoparticle can comprise a circular DNA molecule.
  • a lipid nanoparticle can comprise a Doggybone DNA molecule.
  • a lipid nanoparticle can comprise a DNA plasmid.
  • a lipid nanoparticle can comprise a DNA nanoplasmid.
  • a DNA molecule can be a linearized DNA molecule, such as, but not limited to, a linearized DNA plasmid or a linearized DNA nanoplasmid.
  • a DNA plasmid or DNA nanoplasmid can comprise can be at least about 0.25 kb, or at least about 0.5 kb, or at least about 0.75 kb, or at least about 1.0 kb, or at least about 1.25 kb, or at least about 1.5 kb, or at least about 1.75 kb, or at least about 2.0 kb, or at least about 2.25 kb, or at least about 2.5 kb, or at least about 2.75 kb, or at least about 3.0 kb, or at least about 3.25 kb, or at least about 3.5 kb, or at least about 3.75 kb, or at least about 4.0 kb, or at least about 4.25 kb, or at least about 4.5 kb, or at least about 4.75 kb, or at least about
  • a nucleic acid molecule formulated in a lipid nanoparticle of the present disclosure can comprise at least one transgene sequence.
  • a transgene sequence can comprise a nucleotide sequence encoding at least one therapeutic protein.
  • a transgene sequence can comprise a nucleotide sequence encoding at least one transposase.
  • a transgene sequence can comprise a nucleotide sequence encoding at least one transposon.
  • a transposon can comprise a nucleotide sequence encoding at least one therapeutic protein.
  • a transposon can comprise a nucleotide sequence encoding at least one therapeutic protein and at least one protomer sequence, wherein the at least one therapeutic protein is operatively linked to the at least one promoter sequence.
  • the lipid nanoparticles of the present disclosure can be produced using a microfluidic-mixing platform.
  • the microfluidic-mixing platform can be a non- turbulent microfluidic mixing platform.
  • a microfluidic-mixing platform can produce the lipid nanoparticles of the present invention by combining a miscible solvent phase comprising the lipid components of the nanoparticle and an aqueous phase comprising the lipid nanoparticle cargo (e.g.
  • the miscible solvent phase and the aqueous phase are mixed in the microfluidic device under laminar flow conditions that do not allow for immediate mixing of the two phases.
  • microscopic features in the channel can allow for controlled, homogenous mixing to produce the lipid nanoparticles of the present disclosure.
  • the microfluidic-mixing platform can include, but are not limited to the NanoAssemblr® Spark (Precision NanoSystems), the NanoAssemblr® IgniteTM (Precision NanoSystems), the NanoAssemblr® Benchtop (Precision NanoSystems), the NanoAssemblr® Blaze (Precision NanoSystems) or the NanoAssemblr® GMP System (Precision NanoSystems).
  • the lipid nanoparticles of the present disclosure can be produced using a microfluidic-mixing platform, wherein the microfluidic mixing platform mixes at a rate of at least about 2.5 ml/min, or at least about 5 ml/min, or at least about 7.5 ml/min, or at least about 10 ml/min, or at least about 12.5 ml/min, or at least about 15 ml/min, or at least about 17.5 ml/min, or at least about 20 ml/min, or at least about 22.5 ml/min, or at least about 25 ml/min, or at least about 27.5 ml/min, or at least about 30 ml/min.
  • the lipid nanoparticles of the present disclosure can be produced using a microfluidic-mixing platform, wherein the microfluidic mixing platform mixes a miscible solvent phase and an aqueous phase at a ratio of about 10:1, or about 9:1, or about 8:1, or about 7:1, or about 6:1, or about 5:1, or about 4:1, or about 3:1, or about 2:1, or about 1:1, or about 1:2, or about 1:3, or about 1:4, or about 1:5, or about 1:6, or about 1:7, or about 1:8, or about 1:9, or about 1:10, solvent:aqueous, v:v.
  • a piggyBac® ITR sequence such as a first piggyBac® ITR sequence and/or a second piggyBac® ITR sequence in an AAV piggyBac® transposon can comprise, consist essentially of, or consist of a Sleeping Beauty transposon ITR, a Helraiser transposon ITR, a Tol2 transposon ITR, a TcBuster transposon ITR or any combination thereof.
  • a nucleic acid can comprise a transposon or a nanotransposon comprising: a first nucleic acid sequence comprising: (a) a first inverted terminal repeat (ITR) or a sequence encoding a first ITR, (b) a second ITR or a sequence encoding a second ITR, and (c) an intra-ITR sequence or a sequence encoding an intra-ITR, wherein the intra-ITR sequence comprises a transposon sequence or a sequence encoding a transposon.
  • ITR inverted terminal repeat
  • the transposon or nanotransposon of the present disclosure can be a piggyBac® (PB) transposon.
  • the transposase is a piggyBac® (PB) transposase a piggyBac-like (PBL) transposase or a Super piggyBac® (SPB) transposase.
  • the sequence encoding the SPB transposase is an mRNA sequence.
  • Patent No.6,962,810 U.S. Patent No. 8,399,643 and PCT Publication No. WO 2010/099296.
  • the PB, PBL and SPB transposases recognize transposon-specific inverted terminal repeat sequences (ITRs) on the ends of the transposon, and inserts the contents between the ITRs at the sequence 5’-TTAT-3’ within a chromosomal site (a TTAT target sequence) or at the sequence 5’-TTAA-3’ within a chromosomal site (a TTAA target sequence).
  • ITRs transposon-specific inverted terminal repeat sequences
  • the target sequence of the PB or PBL transposon can comprise or consist of 5’-CTAA-3’, 5’-TTAG-3’, 5’-ATAA-3’, 5’-TCAA-3’, 5’AGTT-3’, 5’-ATTA-3’, 5’-GTTA-3’, 5’-TTGA-3’, 5’-TTTA-3’, 5’-TTAC-3’, 5’-ACTA-3’, 5’-AGGG-3’, 5’-CTAG-3’, 5’-TGAA-3’, 5’-AGGT-3’, 5’-ATCA-3’, 5’-CTCC-3’, 5’-TAAA-3’, 5’-TCTC-3’, 5’TGAA-3’, 5’-AAAT-3’, 5’-AATC-3’, 5’-ACAA-3’, 5’-ACAT-3’, 5’-ACTC-3’, 5’-AGTG-3’, 5’-ATAG-3’, 5’-CAAA-3’, 5’-CACA-3’, 5’-CATA-3
  • PB or PBL transposon system has no payload limit for the genes of interest that can be included between the ITRs.
  • Exemplary amino acid sequences for one or more PB, PBL and SPB transposases are disclosed in U.S. Patent No.6,218,185; U.S. Patent No.6,962,810 and U.S. Patent No. 8,399,643, each of which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein.
  • the PB transposase comprises or consists of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 1.
  • the PB transposases comprises the amino acid sequence of SEQ ID NO: 1.
  • the PB or PBL transposase can comprise or consist of an amino acid sequence having an amino acid substitution at two or more, at three or more or at each of positions 30, 165, 282, and/or 538 of the sequence of SEQ ID NO: 1.
  • the transposase can be a SPB transposase that comprises or consists of the amino acid sequence of the sequence of SEQ ID NO: 1 wherein the amino acid substitution at position 30 can be a substitution of a valine (V) for an isoleucine (I), the amino acid substitution at position 165 can be a substitution of a serine (S) for a glycine (G), the amino acid substitution at position 282 can be a substitution of a valine (V) for a methionine (M), and the amino acid substitution at position 538 can be a substitution of a lysine (K) for an asparagine (N).
  • the amino acid substitution at position 30 can be a substitution of a valine (V) for an isoleucine (I)
  • the amino acid substitution at position 165 can be a substitution of a serine (S) for a glycine (G)
  • the amino acid substitution at position 282 can be a substitution of a valine (V) for
  • the SPB transposase comprises or consists of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 2. In some embodiments, the SPB transposase comprises the amino sequence set forth in SEQ ID NO: 2.
  • the PB, PBL and SPB transposases can further comprise an amino acid substitution at one or more of positions 3, 46, 82, 103, 119, 125, 177, 180, 185, 187, 200, 207, 209, 226, 235, 240, 241, 243, 258, 296, 298, 311, 315, 319, 327, 328, 340, 421, 436, 456, 470, 486, 503, 552, 570 and 591 of the sequence of SEQ ID NO: 1 or SEQ ID NO: 2 are described in more detail in PCT Publications No.
  • the PB transposase comprises or consists of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 3.
  • the PB transposase comprises the amino acid sequence set forth in SEQ ID NO: 3.
  • the PB or PBL transposase can comprise or consist of an amino acid sequence having an amino acid substitution at two or more, at three or more or at each of positions 29, 164, 281, and/or 537 of the sequence of SEQ ID NO: 3.
  • the transposase can be a SPB transposase that comprises or consists of the amino acid sequence of the sequence of SEQ ID NO: 3 wherein the amino acid substitution at position 29 can be a substitution of a valine (V) for an isoleucine (I), the amino acid substitution at position 164 can be a substitution of a serine (S) for a glycine (G), the amino acid substitution at position 281 can be a substitution of a valine (V) for a methionine (M), and the amino acid substitution at position 537 can be a substitution of a lysine (K) for an asparagine (N).
  • the amino acid substitution at position 29 can be a substitution of a valine (V) for an isoleucine (I)
  • the amino acid substitution at position 164 can be a substitution of a serine (S) for a glycine (G)
  • the amino acid substitution at position 281 can be a substitution of a valine (V) for
  • the SPB transposase comprises or consists of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 4. In some embodiments, the SPB transposase comprises the amino acid sequence set forth in SEQ ID NO: 4.
  • the PB, PBL and SPB transposases can further comprise an amino acid substitution at one or more of positions 2, 45, 81, 102, 118, 124, 176, 179, 184, 186, 199, 206, 208, 225, 234, 239, 240, 242, 257, 295, 297, 310, 314, 318, 326, 327, 339, 420, 435, 455, 469, 485, 502, 551, 569 and 590 of the sequence of SEQ ID NO: 3 or SEQ ID NO: 4 are described in more detail in PCT Publication No.
  • PB, PBL or SPB transposases can be isolated or derived from an insect, vertebrate, crustacean or urochordate as described in more detail in PCT Publication No. WO 2019/173636 and PCT/US2019/049816.
  • the PB, PBL or SPB transposases is isolated or derived from the insect Trichoplusia ni (GenBank Accession No. AAA87375) or Bombyx mori (GenBank Accession No. BAD11135).
  • a hyperactive PB or PBL transposase is a transposase that is more active than the endogenous transposase from which it is derived.
  • a hyperactive PB or PBL transposase is isolated or derived from Bombyx mori or Xenopus tropicalis.
  • Examples of hyperactive PB or PBL transposases are disclosed in U.S. Patent No.6,218,185; U.S. Patent No. 6,962,810, U.S. Patent No.8,399,643 and WO 2019/173636, each of which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein.
  • a transposon or nanotransposon of the present disclosure can be a Sleeping Beauty transposon.
  • the transposase is a Sleeping Beauty transposase (for example as disclosed in U.S. Patent No.9,228,180, which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein) or a hyperactive Sleeping Beauty (SB100X) transposase.
  • the PB or PBL transposase is integration deficient.
  • An integration deficient PB or PBL transposase is a transposase that can excise its corresponding transposon, but that integrates the excised transposon at a lower frequency than a corresponding wild type transposase.
  • Examples of integration deficient PB or PBL transposases are disclosed in U.S. Patent No.6,218,185; U.S. Patent No.6,962,810, U.S. Patent No.8,399,643 and WO 2019/173636, each of which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein.
  • PB or PBL transposase is fused to a nuclear localization signal.
  • Examples of PB or PBL transposases fused to a nuclear localization signal are disclosed in U.S. Patent No.6,218,185; U.S. Patent No.6,962,810, U.S. Patent No.8,399,643 and WO 2019/173636, each of which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein.
  • a transposon or nanotransposon of the present disclosure can be a Sleeping Beauty transposon.
  • the transposase is a Sleeping Beauty transposase (for example as disclosed in U.S. Patent No. 9,228,180, which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein) or a hyperactive Sleeping Beauty (SB100X) transposase.
  • a transposon or nanotransposon of the present disclosure can be a Helraiser transposon.
  • An exemplary Helraiser transposon includes Helibat1.
  • the transposase when the transposon is a Helraiser transposon, the transposase is a Helitron transposase (for example, as disclosed in WO 2019/173636, which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein).
  • a transposon or nanotransposon of the present disclosure can be a Tol2 transposon.
  • the transposase when the transposon is a Tol2 transposon, the transposase is a Tol2 transposase (for example, as disclosed in WO 2019/173636).
  • a transposon or nanotransposon of the present disclosure can be a TcBuster transposon.
  • the transposase is a TcBuster transposase or a hyperactive TcBuster transposase (for example, as disclosed in WO 2019/173636, which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein).
  • the TcBuster transposase can comprise or consist of a naturally occurring amino acid sequence or a non-naturally occurring amino acid sequence.
  • the polynucleotide encoding a TcBuster transposase can comprise or consist of a naturally occurring nucleic acid sequence or a non-naturally occurring nucleic acid sequence.
  • a mutant TcBuster transposase comprises one or more sequence variations when compared to a wild type TcBuster transposase as described in more detail in PCT Publications No. WO 2019/173636 and No. WO 2020/051374, each of which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein.
  • the cell delivery compositions e.g., transposons
  • the cell delivery compositions can comprise a nucleic acid molecule encoding a therapeutic protein or therapeutic agent.
  • therapeutic proteins include those disclosed in PCT Publications No. WO 2019/173636 and No. WO 2020/051374, each of which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein.
  • a therapeutic protein can comprise a FVIII polypeptide.
  • An exemplary nanoplasmid encoding an FVIII polypeptide is provided in SEQ ID NO: 9.
  • a nucleic acid formulated in a nanoparticle of the present disclosure can comprise, consist essentially of, or consist of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 9.
  • a therapeutic protein can comprise a propionyl-CoA carboxylase subunit alpha (PCCA) polypeptide.
  • PCCA propionyl-CoA carboxylase subunit alpha
  • a nucleic acid formulated in a nanoparticle of the present disclosure can comprise, consist essentially of, or consist of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 10.
  • Gene editing systems [0224] The present disclosure provides a gene editing composition and/or a cell comprising the gene editing composition.
  • the gene editing composition can comprise a nanoparticle comprising a nucleic acid, wherein the nucleic acid comprises a sequence encoding a DNA binding domain and a sequence encoding a nuclease protein or a nuclease domain thereof.
  • the sequence encoding a nuclease protein or the sequence encoding a nuclease domain thereof can comprise a DNA sequence, an RNA sequence, or a combination thereof.
  • the nuclease or the nuclease domain thereof can comprise one or more of a CRISPR/Cas protein, a Transcription Activator- Like Effector Nuclease (TALEN), a Zinc Finger Nuclease (ZFN), and an endonuclease.
  • TALEN Transcription Activator- Like Effector Nuclease
  • ZFN Zinc Finger Nuclease
  • the nuclease or the nuclease domain thereof can comprise a nuclease-inactivated Cas (dCas) protein and an endonuclease.
  • the endonuclease can comprise a Clo051 nuclease or a nuclease domain thereof.
  • the gene editing composition can comprise a fusion protein.
  • the fusion protein can comprise a nuclease-inactivated Cas9 (dCas9) protein and a Clo051 nuclease or a Clo051 nuclease domain.
  • the fusion protein can further comprise at least one nuclear localization signal (NLS).
  • the fusion protein can further comprise at least two NLSs.
  • the gene editing composition can further comprise a guide sequence.
  • the guide sequence can comprise an RNA sequence.
  • a transgene can comprise a nucleic sequence encoding a small, Cas9 (Cas9) operatively- linked to an effector.
  • the disclosure provides a fusion protein comprising, consisting essentially of or consisting of a DNA localization component and an effector molecule, wherein the effector comprises a small, Cas9 (Cas9).
  • a small Cas9 construct of the disclosure can comprise an effector comprising a type IIS endonuclease.
  • a transgene can comprise a nucleic sequence encoding an inactivated, small, Cas9 (dSaCas9) operatively-linked to an effector.
  • a transgene can comprise a nucleic sequence encoding a fusion protein comprising, consisting essentially of or consisting of a DNA localization component and an effector molecule, wherein the effector comprises a small, inactivated Cas9 (dSaCas9).
  • a small, inactivated Cas9 (dSaCas9) construct of the disclosure can comprise an effector comprising a type IIS endonuclease.
  • a transgene can comprise a nucleic sequence encoding an inactivated Cas9 (dCas9) operatively-linked to an effector.
  • a transgene can comprise a nucleic sequence encoding a fusion protein comprising, consisting essentially of or consisting of a DNA localization component and an effector molecule, wherein the effector comprises an inactivated Cas9 (dCas9).
  • An inactivated Cas9 (dCas9) construct of the disclosure can comprise an effector comprising a type IIS endonuclease.
  • the dCas9 can be isolated or derived from Streptoccocus pyogenes.
  • the dCas9 can comprise a dCas9 with substitutions at amino acid positions 10 and 840, which inactivate the catalytic site. In some aspects, these substitutions are D10A and H840A.
  • a cell comprising the gene editing composition can express the gene editing composition stably or transiently.
  • the gene editing composition is expressed transiently.
  • the guide RNA can comprise a sequence complementary to a target sequence within a genomic DNA sequence.
  • the target sequence within a genomic DNA sequence can be a target sequence within a safe harbor site of a genomic DNA sequence.
  • a Cas-CLOVER protein can comprise, consist essentially of, or consist of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 11.
  • the Cas-CLOVER protein comprises the amino acid sequence set forth in SEQ ID NO: 11.
  • the present disclosure provides any of the lipid nanoparticle compositions described herein, wherein the lipid nanoparticle comprises at least one genomic editing composition, wherein the at least one genomic editing composition comprises: a) a nucleic acid molecule comprising a nucleic acid sequence encoding a fusion protein, wherein the fusion protein comprises (i) an inactivated Cas9 (dCas9) protein or an inactivated nuclease domain thereof, (ii) a Clo051 protein or a nuclease domain thereof; and b) at least one gRNA molecule.
  • the fusion protein can further comprise at least one NLS.
  • the at least one genomic editing composition can comprise at least two species of gRNA molecules.
  • nucleic acid sequence encoding a fusion protein are presented in SEQ ID NO: 5.
  • a nucleic acid molecule formulated in a lipid nanoparticle of the present disclosure can comprise, consist essentially of, or consist of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 5.
  • Exemplary gRNA sequences are presented in SEQ ID NOs: 6 and 7.
  • gRNA molecules formulated in a lipid nanoparticle of the present disclosure can comprise, consist essentially of, or consist of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 6 or SEQ ID NO: 7.
  • Formulations, Dosages and Modes of Administration [0235] The present disclosure provides formulations, dosages and methods for administration of the compositions described herein.
  • compositions and pharmaceutical compositions can further comprise at least one of any suitable auxiliary, such as, but not limited to, diluent, binder, stabilizer, buffers, salts, lipophilic solvents, preservative, adjuvant or the like.
  • Pharmaceutically acceptable auxiliaries are preferred.
  • Non-limiting examples of, and methods of preparing such sterile solutions are well known in the art, such as, but limited to, Gennaro, Ed., Remington's Pharmaceutical Sciences, 18th Edition, Mack Publishing Co. (Easton, Pa.) 1990 and in the “Physician's Desk Reference”, 52nd ed., Medical Economics (Montvale, N.J.) 1998.
  • compositions of the present invention can further comprise a diluent.
  • the diluent can be phosphate buffered saline (“PBS”).
  • Non-limiting examples of pharmaceutical excipients and additives suitable for use include proteins, peptides, amino acids, lipids, and carbohydrates (e.g., sugars, including monosaccharides, di-, tri-, tetra-, and oligosaccharides; derivatized sugars, such as alditols, aldonic acids, esterified sugars and the like; and polysaccharides or sugar polymers), which can be present singly or in combination, comprising alone or in combination 1-99.99% by weight or volume.
  • Non-limiting examples of protein excipients include serum albumin, such as human serum albumin (HSA), recombinant human albumin (rHA), gelatin, casein, and the like.
  • Representative amino acid/protein components which can also function in a buffering capacity, include alanine, glycine, arginine, betaine, histidine, glutamic acid, aspartic acid, cysteine, lysine, leucine, isoleucine, valine, methionine, phenylalanine, aspartame, and the like.
  • One preferred amino acid is glycine.
  • the compositions can also include a buffer or a pH-adjusting agent; typically, the buffer is a salt prepared from an organic acid or base.
  • Representative buffers include organic acid salts, such as salts of citric acid, ascorbic acid, gluconic acid, carbonic acid, tartaric acid, succinic acid, acetic acid, or phthalic acid; Tris, tromethamine hydrochloride, or phosphate buffers.
  • Preferred buffers are organic acid salts, such as citrate.
  • the buffer can include sucrose.
  • a composition of the disclosure can be prepared for use for parenteral (subcutaneous, intramuscular or intravenous) or any other administration particularly in the form of liquid solutions or suspensions; for use in vaginal or rectal administration particularly in semisolid forms, such as, but not limited to, creams and suppositories; for buccal, or sublingual administration, such as, but not limited to, in the form of tablets or capsules; or intranasally, such as, but not limited to, the form of powders, nasal drops or aerosols or certain agents; or transdermally, such as not limited to a gel, ointment, lotion, suspension or patch delivery system with chemical enhancers such as dimethyl sulfoxide to either modify the skin structure or to increase the drug concentration in the transdermal patch (Junginger, et al.
  • any composition disclosed herein can be formulated as a solution, suspension, emulsion, particle, powder, or lyophilized powder in association, or separately provided, with a pharmaceutically acceptable parenteral vehicle.
  • Formulations for parenteral administration can contain as common excipients sterile water or saline, polyalkylene glycols, such as polyethylene glycol, oils of vegetable origin, hydrogenated naphthalenes and the like.
  • Aqueous or oily suspensions for injection can be prepared by using an appropriate emulsifier or humidifier and a suspending agent, according to known methods.
  • Agents for injection can be a non-toxic, non-orally administrable diluting agent, such as aqueous solution, a sterile injectable solution or suspension in a solvent.
  • a non-toxic, non-orally administrable diluting agent such as aqueous solution, a sterile injectable solution or suspension in a solvent.
  • the usable vehicle or solvent water, Ringer's solution, isotonic saline, etc. are allowed; as an ordinary solvent or suspending solvent, sterile involatile oil can be used.
  • any kind of involatile oil and fatty acid can be used, including natural or synthetic or semisynthetic fatty oils or fatty acids; natural or synthetic or semisynthtetic mono- or di- or tri-glycerides.
  • Parental administration is known in the art and includes, but is not limited to, conventional means of injections, a gas pressured needle- less injection device as described in U.S. Pat. No.5,851,198, and a laser perforator device as described in U.S. Pat. No.5,839,446, each of which is incorporated herein by reference in its entirety for examples of injection devices that may be used in conjunction with the compositions and methods described herein.
  • a composition or pharmaceutical composition described herein is delivered in a particle size effective for reaching the lower airways of the lung or sinuses.
  • the composition or pharmaceutical composition can be delivered by any of a variety of inhalation or nasal devices known in the art for administration of a therapeutic agent by inhalation.
  • These devices capable of depositing aerosolized formulations in the sinus cavity or alveoli of a patient include metered dose inhalers, nebulizers (e.g., jet nebulizer, ultrasonic nebulizer), dry powder generators, sprayers, and the like. All such devices can use formulations suitable for the administration for the dispensing of a composition or pharmaceutical composition described herein in an aerosol.
  • Such aerosols can be comprised of either solutions (both aqueous and non-aqueous) or solid particles.
  • a metered dose inhaler MDI
  • a propellant, a composition or pharmaceutical composition described herein, and any excipients or other additives are contained in a canister as a mixture including a liquefied compressed gas.
  • compositions include an emulsion comprising a plurality of submicron particles, a mucoadhesive macromolecule, a bioactive peptide, and an aqueous continuous phase, which promotes absorption through mucosal surfaces by achieving mucoadhesion of the emulsion particles (see, e.g., U.S. Pat.
  • Mucous surfaces suitable for application of the emulsions of the disclosure can include corneal, conjunctival, buccal, sublingual, nasal, vaginal, pulmonary, stomachic, intestinal, and rectal routes of administration.
  • Formulations for vaginal or rectal administration e.g., suppositories, can contain as excipients, for example, polyalkyleneglycols, vaseline, cocoa butter, and the like.
  • Formulations for intranasal administration can be solid and contain as excipients, for example, lactose or can be aqueous or oily solutions of nasal drops.
  • excipients include sugars, calcium stearate, magnesium stearate, pregelinatined starch, and the like (see, e.g., U.S. Pat. No. 5,849,695, which is incorporated herein by reference in its entirety for examples).
  • excipients include sugars, calcium stearate, magnesium stearate, pregelinatined starch, and the like (see, e.g., U.S. Pat. No. 5,849,695, which is incorporated herein by reference in its entirety for examples).
  • a more detailed description of mucosal administration and formulations is disclosed in PCT Publication No. WO 2019/049816, each of which is incorporated herein by reference in its entirety for examples of formulations that may be used in conjunction with the compositions and methods described herein.
  • a composition or pharmaceutical composition disclosed herein is encapsulated in a delivery device, such as a liposome or polymeric nanoparticles, microparticle, microcapsule, or microspheres (referred to collectively as microparticles unless otherwise stated).
  • a delivery device such as a liposome or polymeric nanoparticles, microparticle, microcapsule, or microspheres (referred to collectively as microparticles unless otherwise stated).
  • suitable devices are known, including microparticles made of synthetic polymers, such as polyhydroxy acids, such as polylactic acid, polyglycolic acid and copolymers thereof, polyorthoesters, polyanhydrides, and polyphosphazenes, and natural polymers, such as collagen, polyamino acids, albumin and other proteins, alginate and other polysaccharides, and combinations thereof (see, e.g., U.S. Pat.
  • transdermal administration, formulations and suitable devices A more detailed description of transdermal administration, formulations and suitable devices is disclosed in PCT Publication No. WO 2019/049816, which is incorporated herein by reference in its entirety for examples of formulations and devices that may be used in conjunction with the compositions and methods described herein.
  • PCT Publication No. WO 2019/049816 which is incorporated herein by reference in its entirety for examples of formulations and devices that may be used in conjunction with the compositions and methods described herein.
  • Various slow release, depot or implant dosage forms can be utilized.
  • Suitable dosages are well known in the art.
  • Preferred doses can optionally include about 0.1-99 and/or 100-500 mg/kg/administration, or any range, value or fraction thereof, or to achieve a serum concentration of about 0.1-5000 ⁇ g/ml serum concentration per single or multiple administration, or any range, value or fraction thereof.
  • a preferred dosage range for the compositions or pharmaceutical compositions disclosed herein is from about 1 mg/kg, up to about 3, about 6 or about 12 mg/kg of body weight of the subject.
  • the dosage administered can vary depending upon known factors, such as the pharmacodynamic characteristics of the particular agent, and its mode and route of administration; age, health, and weight of the recipient; nature and extent of symptoms, kind of concurrent treatment, frequency of treatment, and the effect desired.
  • treatment of humans or animals can be provided as a one- time or periodic dosage of the compositions or pharmaceutical compositions disclosed herein about 0.1 to 100 mg/kg or any range, value or fraction thereof per day, on at least one of day 1- 40, or, alternatively or additionally, at least one of week 1-52, or, alternatively or additionally, at least one of 1-20 years, or any combination thereof, using single, infusion or repeated doses.
  • the cells can be administered between about 1x10 3 and 1x10 15 cells; 1x10 3 and 1x10 15 cells, about 1x10 4 and 1x10 12 cells; about 1x10 5 and 1x10 10 cells; about 1x10 6 and 1x10 9 cells; about 1x10 6 and 1x10 8 cells; about 1x10 6 and 1x10 7 cells; or about 1x10 6 and 25x10 6 cells.
  • the cells are administered between about 5x10 6 and 25x10 6 cells.
  • compositions and pharmaceutical compositions A more detailed description of pharmaceutically acceptable excipients, formulations, dosages and methods of administration of the disclosed compositions and pharmaceutical compositions is disclosed in PCT Publication No. WO 2019/04981, which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein.
  • the disclosure provides the use of a disclosed composition or pharmaceutical composition for the treatment of a disease or disorder in a cell, tissue, organ, animal, or subject, as known in the art or as described herein, using the disclosed compositions and pharmaceutical compositions, e.g., administering or contacting the cell, tissue, organ, animal, or subject with a therapeutic effective amount of the composition or pharmaceutical composition.
  • the subject is a mammal.
  • the subject is human.
  • the terms “subject” and “patient” are used interchangeably herein.
  • the disclosure provides a method for modulating or treating at least one malignant disease or disorder in a cell, tissue, organ, animal or subject.
  • Non-limiting examples of a malignant disease or disorder include cancer and liver diseases or disorders.
  • Any method can comprise administering an effective amount of any composition or pharmaceutical composition disclosed herein to a cell, tissue, organ, animal or subject in need of such modulation, treatment or therapy.
  • Such a method can optionally further comprise co- administration or combination therapy for treating such diseases or disorders, wherein the administering of any composition or pharmaceutical composition disclosed herein, further comprises administering, before concurrently, and/or after, at least one chemotherapeutic agent (e.g., an alkylating agent, an a mitotic inhibitor, a radiopharmaceutical).
  • the subject does not develop graft vs. host (GvH) and/or host vs. graft (HvG) following administration.
  • the administration is systemic.
  • Systemic administration can be any means known in the art and described in detail herein.
  • systemic administration is by an intravenous injection or an intravenous infusion.
  • the administration is local.
  • Local administration can be any means known in the art and described in detail herein.
  • local administration is by intra-tumoral injection or infusion, intraspinal injection or infusion, intracerebroventricular injection or infusion, intraocular injection or infusion, or intraosseous injection or infusion.
  • the therapeutically effective dose is a single dose.
  • the single dose is one of at least 2, 5, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100 or any number of doses in between that are manufactured simultaneously.
  • the dose is an amount sufficient for the cells to engraft and/or persist for a sufficient time to treat the disease or disorder.
  • the treatment can be modified or terminated. Specifically, in aspects where the composition used for treatment comprises an inducible proapoptotic polypeptide, apoptosis may be selectively induced in the cell by contacting the cell with an induction agent. A treatment may be modified or terminated in response to, for example, a sign of recovery or a sign of decreasing disease severity/progression, a sign of disease remission/cessation, and/or the occurrence of an adverse event.
  • the method comprises the step of administering an inhibitor of the induction agent to inhibit modification of the cell therapy, thereby restoring the function and/or efficacy of the cell therapy (for example, when a sign or symptom of the disease reappear or increase in severity and/or an adverse event is resolved).
  • Construction of Nucleic Acids [0258]
  • the isolated nucleic acids of the disclosure can be made using (a) recombinant methods, (b) synthetic techniques, (c) purification techniques, and/or (d) combinations thereof, as well- known in the art.
  • the nucleic acids can conveniently comprise sequences in addition to a polynucleotide of the present disclosure.
  • a multi-cloning site comprising one or more endonuclease restriction sites can be inserted into the nucleic acid to aid in isolation of the polynucleotide.
  • translatable sequences can be inserted to aid in the isolation of the translated polynucleotide of the disclosure.
  • a hexa-histidine marker sequence provides a convenient means to purify the proteins of the disclosure.
  • the nucleic acid of the disclosure, excluding the coding sequence, is optionally a vector, adapter, or linker for cloning and/or expression of a polynucleotide of the disclosure.
  • Additional sequences can be added to such cloning and/or expression sequences to optimize their function in cloning and/or expression, to aid in isolation of the polynucleotide, or to improve the introduction of the polynucleotide into a cell.
  • Use of cloning vectors, expression vectors, adapters, and linkers is well known in the art. (See, e.g., Ausubel, supra; or Sambrook, supra).
  • Recombinant Methods for Constructing Nucleic Acids [0261]
  • the isolated nucleic acid compositions of this disclosure such as RNA, cDNA, genomic DNA, or any combination thereof, can be obtained from biological sources using any number of cloning methodologies known to those of skill in the art.
  • oligonucleotide probes that selectively hybridize, under stringent conditions, to the polynucleotides of the present disclosure are used to identify the desired sequence in a cDNA or genomic DNA library.
  • the isolation of RNA, and construction of cDNA and genomic libraries are well known to those of ordinary skill in the art. (See, e.g., Ausubel, supra; or Sambrook, supra).
  • Nucleic Acid Screening and Isolation Methods [0262] A cDNA or genomic library can be screened using a probe based upon the sequence of a polynucleotide of the disclosure. Probes can be used to hybridize with genomic DNA or cDNA sequences to isolate homologous genes in the same or different organisms.
  • the degree of stringency of hybridization can be employed in the assay; and either the hybridization or the wash medium can be stringent. As the conditions for hybridization become more stringent, there must be a greater degree of complementarity between the probe and the target for duplex formation to occur.
  • the degree of stringency can be controlled by one or more of temperature, ionic strength, pH and the presence of a partially denaturing solvent, such as formamide.
  • the stringency of hybridization is conveniently varied by changing the polarity of the reactant solution through, for example, manipulation of the concentration of formamide within the range of 0% to 50%.
  • the degree of complementarity (sequence identity) required for detectable binding will vary in accordance with the stringency of the hybridization medium and/or wash medium.
  • the degree of complementarity will optimally be 100%, or 70-100%, or any range or value therein. However, it should be understood that minor sequence variations in the probes and primers can be compensated for by reducing the stringency of the hybridization and/or wash medium.
  • RNA mediated amplification that uses anti-sense RNA to the target sequence as a template for double-stranded DNA synthesis
  • PCR polymerase chain reaction
  • in vitro amplification methods can also be useful, for example, to clone nucleic acid sequences that code for proteins to be expressed, to make nucleic acids to use as probes for detecting the presence of the desired mRNA in samples, for nucleic acid sequencing, or for other purposes.
  • the isolated nucleic acids of the disclosure can also be prepared by direct chemical synthesis by known methods (see, e.g., Ausubel, et al., supra). Chemical synthesis generally produces a single-stranded oligonucleotide, which can be converted into double-stranded DNA by hybridization with a complementary sequence, or by polymerization with a DNA polymerase using the single strand as a template.
  • Chemical synthesis of DNA can be limited to sequences of about 100 or more bases, longer sequences can be obtained by the ligation of shorter sequences.
  • the disclosure further provides recombinant expression cassettes comprising a nucleic acid of the disclosure.
  • a nucleic acid sequence of the disclosure can be used to construct a recombinant expression cassette that can be introduced into at least one desired host cell.
  • a recombinant expression cassette will typically comprise a polynucleotide of the disclosure operably linked to transcriptional initiation regulatory sequences that will direct the transcription of the polynucleotide in the intended host cell. Both heterologous and non-heterologous (i.e., endogenous) promoters can be employed to direct expression of the nucleic acids of the disclosure.
  • isolated nucleic acids that serve as promoter, enhancer, or other elements can be introduced in the appropriate position (upstream, downstream or in the intron) of a non-heterologous form of a polynucleotide of the disclosure so as to up or down regulate expression of a polynucleotide of the disclosure.
  • endogenous promoters can be altered in vivo or in vitro by mutation, deletion and/or substitution.
  • Expression Vectors and Host Cells [0269] The disclosure also relates to vectors that include isolated nucleic acid molecules of the disclosure and host cells that are genetically engineered with the recombinant vectors, as is well known in the art.
  • the polynucleotides can optionally be joined to a vector containing a selectable marker for propagation in a host.
  • a plasmid vector is introduced in a precipitate, such as a calcium phosphate precipitate, or in a complex with a charged lipid. If the vector is a virus, it can be packaged in vitro using an appropriate packaging cell line and then transduced into host cells.
  • the DNA insert should be operatively linked to an appropriate promoter.
  • the expression constructs will further contain sites for transcription initiation, termination and, in the transcribed region, a ribosome binding site for translation.
  • the coding portion of the mature transcripts expressed by the constructs will preferably include a translation initiating at the beginning and a termination codon (e.g., UAA, UGA or UAG) appropriately positioned at the end of the mRNA to be translated, with UAA and UAG preferred for mammalian or eukaryotic cell expression.
  • Expression vectors will preferably but optionally include at least one selectable marker.
  • Such markers include, e.g., but are not limited to, ampicillin, zeocin (Sh bla gene), puromycin (pac gene), hygromycin B (hygB gene), G418/Geneticin (neo gene), DHFR (encoding Dihydrofolate Reductase and conferring resistance to Methotrexate), mycophenolic acid, or glutamine synthetase (GS, U.S. Pat.
  • Expression vectors will preferably but optionally include at least one selectable cell surface marker for isolation of cells modified by the compositions and methods of the disclosure. Selectable cell surface markers of the disclosure comprise surface proteins, glycoproteins, or group of proteins that distinguish a cell or subset of cells from another defined subset of cells.
  • the selectable cell surface marker distinguishes those cells modified by a composition or method of the disclosure from those cells that are not modified by a composition or method of the disclosure.
  • Such cell surface markers include, e.g., but are not limited to, “cluster of designation” or “classification determinant” proteins (often abbreviated as “CD”) such as a truncated or full length form of CD19, CD271, CD34, CD22, CD20, CD33, CD52, or any combination thereof.
  • Cell surface markers further include the suicide gene marker RQR8 (Philip B et al. Blood.2014 Aug 21; 124(8):1277-87).
  • Expression vectors will preferably but optionally include at least one selectable drug resistance marker for isolation of cells modified by the compositions and methods of the disclosure.
  • Selectable drug resistance markers of the disclosure may comprise wild-type or mutant Neo, DHFR, TYMS, FRANCF, RAD51C, GCS, MDR1, ALDH1, NKX2.2, or any combination thereof.
  • Those of ordinary skill in the art are knowledgeable in the numerous expression systems available for expression of a nucleic acid molecule encoding a protein of the disclosure. Definitions [0276] As used throughout the disclosure, the singular forms “a,” “and,” and “the” include plural referents unless the context clearly dictates otherwise.
  • reference to “a method” includes a plurality of such methods and reference to “a dose” includes reference to one or more doses and equivalents thereof known to those skilled in the art, and so forth.
  • the term “about” or “approximately” means within an acceptable error range for the particular value as determined by one of ordinary skill in the art, which will depend in part on how the value is measured or determined, e.g., the limitations of the measurement system. For example, “about” can mean within 1 or more standard deviations. Alternatively, “about” can mean a range of up to 20%, or up to 10%, or up to 5%, or up to 1% of a given value.
  • the term can mean within an order of magnitude, preferably within 5-fold, and more preferably within 2-fold, of a value.
  • the marking indicates the position where a functional group bonds to another portion of a molecule. Definitions of specific functional groups and chemical terms are described in more detail below.
  • Certain compounds of the present invention may exist in particular geometric or stereoisomeric forms.
  • the present invention contemplates all such compounds, including cis- and trans-isomers, R- and S-enantiomers, diastereomers, (D)-isomers, (L)-isomers, the racemic mixtures thereof, and other mixtures thereof, as falling within the scope of the invention. Additional asymmetric carbon atoms may be present in a substituent such as an alkyl group. All such isomers, as well as mixtures thereof, are intended to be included in this invention. [0280] Isomeric mixtures containing any of a variety of isomer ratios may be utilized in accordance with the present invention.
  • mixtures containing 50:50, 60:40, 70:30, 80:20, 90:10, 95:5, 96:4, 97:3, 98:2, 99:1, or 100:0 isomer ratios are all contemplated by the present invention.
  • Those of ordinary skill in the art will readily appreciate that analogous ratios are contemplated for more complex isomer mixtures.
  • a particular enantiomer of a compound of the present invention is desired, it may be prepared by asymmetric synthesis, or by derivation with a chiral auxiliary, where the resulting diastereomeric mixture is separated and the auxiliary group cleaved to provide the pure desired enantiomers.
  • diastereomeric salts are formed with an appropriate optically-active acid or base, followed by resolution of the diastereomers thus formed by fractional crystallization or chromatographic means well known in the art, and subsequent recovery of the pure enantiomers.
  • protecting group it is meant that a particular functional moiety, e.g., O, S, or N, is temporarily blocked so that a reaction can be carried out selectively at another reactive site in a multifunctional compound.
  • a protecting group reacts selectively in good yield to give a protected substrate that is stable to the projected reactions; the protecting group should be selectively removable in good yield by readily available, preferably non-toxic reagents that do not attack the other functional groups; the protecting group forms an easily separable derivative (more preferably without the generation of new stereogenic centers); and the protecting group has a minimum of additional functionality to avoid further sites of reaction.
  • oxygen, sulfur, nitrogen, and carbon protecting groups may be utilized.
  • aliphatic includes both saturated and unsaturated, straight chain (i.e., unbranched), branched, acyclic, cyclic, or polycyclic aliphatic hydrocarbons, which are optionally substituted with one or more functional groups.
  • aliphatic is intended herein to include, but is not limited to, alkyl, alkenyl, alkynyl, cycloalkyl, cycloalkenyl, and cycloalkynyl moieties.
  • alkyl includes straight, branched and cyclic alkyl groups.
  • alkyl alkenyl
  • alkynyl alkynyl
  • the terms “alkyl,” “alkenyl,” “alkynyl,” and the like encompass both substituted and unsubstituted groups.
  • lower alkyl is used to indicate those alkyl groups (cyclic, acyclic, substituted, unsubstituted, branched or unbranched) having 1- 6 carbon atoms.
  • the alkyl, alkenyl, and alkynyl groups employed in the invention contain 1-18 aliphatic carbon atoms.
  • the alkyl, alkenyl, and alkynyl groups employed in the invention contain 6-18 aliphatic carbon atoms. In certain embodiments, the alkyl, alkenyl, and alkynyl groups employed in the invention contain 1-15 aliphatic carbon atoms. In certain other embodiments, the alkyl, alkenyl, and alkynyl groups employed in the invention contain 1-10 aliphatic carbon atoms. In yet other embodiments, the alkyl, alkenyl, and alkynyl groups employed in the invention contain 1-8 aliphatic carbon atoms.
  • the alkyl, alkenyl, and alkynyl groups employed in the invention contain 1-6 aliphatic carbon atoms. In yet other embodiments, the alkyl, alkenyl, and alkynyl groups employed in the invention contain 1-4 carbon atoms.
  • Illustrative aliphatic groups thus include, but are not limited to, for example, methyl, ethyl, n-propyl, isopropyl, cyclopropyl, --CH 2 - cyclopropyl, vinyl, allyl, n-butyl, sec-butyl, isobutyl, tert-butyl, cyclobutyl, --CH2-cyclobutyl, n- pentyl, sec-pentyl, isopentyl, tert-pentyl, cyclopentyl, --CH2-cyclopentyl, n-hexyl, sec-hexyl, cyclohexyl, --CH 2 -cyclohexyl moieties and the like, which again, may bear one or more substituents.
  • Alkenyl groups include, but are not limited to, for example, ethenyl, propenyl, butenyl, 1-methyl-2-buten-1-yl, and the like.
  • Representative alkynyl groups include, but are not limited to, ethynyl, 2-propynyl (propargyl), 1-propynyl, and the like.
  • alkyl refers to saturated, straight- (e.g., unbranched) or branched-chain aliphatic groups having from 1 to 18 carbon atoms. As such, “alkyl” encompasses C1, C2, C3, C4, C5, C6, C7, C8, C9, C10, C11 and C12 groups.
  • alkyl groups include, but are not limited to, methyl, ethyl, propyl, isopropyl, n-butyl, tert-butyl, n- pentyl, neopentyl, n-hexyl, n-heptyl, n-octyl, n-decyl, n-undecyl, and dodecyl.
  • alkylene refers to a divalent alkyl radical. Any of the above-mentioned monovalent alkyl groups may be an alkylene by abstraction of a second hydrogen atom from the alkyl.
  • alkylene may also be a C 1 -C 18 alkylene.
  • An alkylene may further be a C1-C12 alkylene.
  • Typical alkylene groups include, but are not limited to, -CH2-, -CH(CH3)-, - C(CH3)2-, -CH2CH2-, -CH2CH(CH3)-, -CH2C(CH3)2-, -CH2CH2CH2-, -CH2CH2CH2CH2-, and the like.
  • alkenyl refers to an unsaturated straight or, when applicable, branched chain aliphatic group with one or more carbon-carbon double bonds, having from 2 to 18 carbon atoms.
  • alkenyl encompasses C 2 , C 3 , C 4 , C 5 , C 6 , C 7 , C 8 , C 9 , C 10 , C 11 and C 12 groups.
  • Alkenyl groups include, for example, ethenyl, propenyl, butenyl, 1-methyl-2-buten-1-yl, and the like.
  • alkynyl refers to an unsaturated straight or, when applicable, branched chain aliphatic group with one or more carbon-carbon triple bonds, having from 2 to 18 carbon atoms.
  • alkynyl encompasses C2, C3, C4, C5, C6, C7, C8, C9, C10, C11 and C12 groups.
  • Representative alkynyl groups include ethynyl, 2-propynyl (propargyl), 1-propynyl, and the like.
  • aryl is a C 6 - C 14 aromatic moiety comprising one to three aromatic rings, which is optionally substituted.
  • aryl includes C6, C7, C8, C9, C10, C11, C12 C13, and C14 cyclic hydrocarbon groups.
  • An exemplary aryl group is a C6-C10 aryl group.
  • aryl groups include, without limitation, phenyl, naphthyl, anthracenyl, and fluorenyl.
  • cycloalkyl as employed herein includes saturated and partially unsaturated cyclic hydrocarbon groups having 3 to 12 carbons. As such, “cycloalkyl” includes C 3 , C 4 , C 5 , C 6 , C 7 , C 8 , C 9 , C 10 , C 11 and C 12 cyclic hydrocarbon groups.
  • cycloalkyl groups include, without limitation, cyclopropyl, cyclobutyl, cyclopentyl, cyclopentenyl, cyclohexyl, cyclohexenyl, cycloheptyl, and cyclooctyl.
  • hydroxyalkyl refers to -alkyl-OH or an alkyl chain substituted with at least one -OH.
  • halo or “halogen” refers to fluoro, chloro, bromo and iodo.
  • the compounds of any one of the Formulae disclosed herein and any pharmaceutically acceptable salts thereof comprise stereoisomers, mixtures of stereoisomers, polymorphs of all isomeric forms of said compounds.
  • the term “independently selected” is used herein to indicate that the R groups can be identical or different.
  • the term “substituted,” whether preceded by the term “optionally” or not, and “substituent,” as used herein, refer to the ability, as appreciated by one skilled in this art, to change one functional group for another functional group provided that the valency of all atoms is maintained.
  • the substituent may be either the same or different at every position.
  • the substituents may also be further substituted (e.g., an aryl group substituent may have another substituent off it, such as another aryl group, which is further substituted with fluorine at one or more positions).
  • an aryl group substituent may have another substituent off it, such as another aryl group, which is further substituted with fluorine at one or more positions.
  • an isolated or purified polynucleotide or protein is substantially free of other cellular material or culture medium when produced by recombinant techniques, or substantially free of chemical precursors or other chemicals when chemically synthesized.
  • an "isolated" polynucleotide is free of sequences (optimally protein encoding sequences) that naturally flank the polynucleotide (i.e., sequences located at the 5' and 3' ends of the polynucleotide) in the genomic DNA of the organism from which the polynucleotide is derived.
  • the isolated polynucleotide can contain less than about 5 kb, 4 kb, 3 kb, 2 kb, 1 kb, 0.5 kb, or 0.1 kb of nucleotide sequence that naturally flank the polynucleotide in genomic DNA of the cell from which the polynucleotide is derived.
  • a protein that is substantially free of cellular material includes preparations of protein having less than about 30%, 20%, 10%, 5%, or 1% (by dry weight) of contaminating protein.
  • optimally culture medium represents less than about 30%, 20%, 10%, 5%, or 1% (by dry weight) of chemical precursors or non-protein-of- interest chemicals.
  • fragment refers to a portion of the DNA sequence or a portion of the amino acid sequence and hence protein encoded thereby. Fragments of a DNA sequence comprising coding sequences may encode protein fragments that retain biological activity of the native protein and hence DNA recognition or binding activity to a target DNA sequence as herein described.
  • fragments of a DNA sequence that are useful as hybridization probes generally do not encode proteins that retain biological activity or do not retain promoter activity.
  • fragments of a DNA sequence may range from at least about 20 nucleotides, about 50 nucleotides, about 100 nucleotides, and up to the full-length polynucleotide of the disclosure.
  • Nucleic acids or proteins of the disclosure can be constructed by a modular approach including preassembling monomer units and/or repeat units in target vectors that can subsequently be assembled into a final destination vector.
  • Polypeptides of the disclosure may comprise repeat monomers of the disclosure and can be constructed by a modular approach by preassembling repeat units in target vectors that can subsequently be assembled into a final destination vector.
  • the disclosure provides polypeptide produced by this method as well nucleic acid sequences encoding these polypeptides.
  • the disclosure provides host organisms and cells comprising nucleic acid sequences encoding polypeptides produced this modular approach.
  • the term "antibody” is used in the broadest sense and specifically covers single monoclonal antibodies (including agonist and antagonist antibodies) and antibody compositions with polyepitopic specificity. It is also within the scope hereof to use natural or synthetic analogs, mutants, variants, alleles, homologs and orthologs (herein collectively referred to as “analogs”) of the antibodies hereof as defined herein. Thus, according to an aspect hereof, the term “antibody hereof” in its broadest sense also covers such analogs.
  • compositions and methods include the recited elements, but do not exclude others.
  • Consisting essentially of when used to define compositions and methods, shall mean excluding other elements of any essential significance to the combination when used for the intended purpose. Thus, a composition consisting essentially of the elements as defined herein would not exclude trace contaminants or inert carriers.
  • Consisting of shall mean excluding more than trace elements of other ingredients and substantial method steps. Aspects defined by each of these transition terms are within the scope of this disclosure.
  • expression refers to the process by which polynucleotides are transcribed into mRNA and/or the process by which the transcribed mRNA is subsequently being translated into peptides, polypeptides, or proteins. If the polynucleotide is derived from genomic DNA, expression may include splicing of the mRNA in a eukaryotic cell. [0302] “Gene expression” refers to the conversion of the information, contained in a gene, into a gene product.
  • a gene product can be the direct transcriptional product of a gene (e.g., mRNA, tRNA, rRNA, antisense RNA, ribozyme, shRNA, micro RNA, structural RNA or any other type of RNA) or a protein produced by translation of an mRNA.
  • Gene products also include RNAs which are modified, by processes such as capping, polyadenylation, methylation, and editing, and proteins modified by, for example, methylation, acetylation, phosphorylation, ubiquitination, ADP-ribosylation, myristilation, and glycosylation.
  • “Modulation” or “regulation” of gene expression refers to a change in the activity of a gene.
  • Modulation of expression can include, but is not limited to, gene activation and gene repression.
  • operatively linked or its equivalents (e.g., “linked operatively”) means two or more molecules are positioned with respect to each other such that they are capable of interacting to affect a function attributable to one or both molecules or a combination thereof.
  • Non-covalently linked components and methods of making and using non-covalently linked components are disclosed. The various components may take a variety of different forms as described herein. For example, non-covalently linked (i.e., operatively linked) proteins may be used to allow temporary interactions that avoid one or more problems in the art.
  • a method for directing proteins to a specific locus in a genome of an organism is disclosed. The method may comprise the steps of providing a DNA localization component and providing an effector molecule, wherein the DNA localization component and the effector molecule are capable of operatively linking via a non-covalent linkage.
  • a “target site” or “target sequence” is a nucleic acid sequence that defines a portion of a nucleic acid to which a binding molecule will bind, provided sufficient conditions for binding exist.
  • nucleic acid or “oligonucleotide” or “polynucleotide” refer to at least two nucleotides covalently linked together.
  • the depiction of a single strand also defines the sequence of the complementary strand.
  • a nucleic acid may also encompass the complementary strand of a depicted single strand.
  • a nucleic acid of the disclosure also encompasses substantially identical nucleic acids and complements thereof that retain the same structure or encode for the same protein.
  • Probes of the disclosure may comprise a single stranded nucleic acid that can hybridize to a target sequence under stringent hybridization conditions.
  • nucleic acids of the disclosure may refer to a probe that hybridizes under stringent hybridization conditions.
  • Nucleic acids of the disclosure may be single- or double-stranded. Nucleic acids of the disclosure may contain double-stranded sequences even when the majority of the molecule is single-stranded. Nucleic acids of the disclosure may contain single-stranded sequences even when the majority of the molecule is double-stranded. Nucleic acids of the disclosure may include genomic DNA, cDNA, RNA, or a hybrid thereof. Nucleic acids of the disclosure may contain combinations of deoxyribo- and ribo-nucleotides.
  • Nucleic acids of the disclosure may contain one or more duplicated, inverted or repeated sequences, the resultant sequence of which does not naturally- occur, rendering the entire nucleic acid sequence non-naturally occurring.
  • Nucleic acids of the disclosure may contain modified, artificial, or synthetic nucleotides that do not naturally-occur, rendering the entire nucleic acid sequence non-naturally occurring.
  • a plurality of nucleotide sequences may encode any particular protein. All such nucleotides sequences are contemplated herein.
  • the term "operably linked” refers to the expression of a gene that is under the control of a promoter with which it is spatially connected.
  • a promoter can be positioned 5' (upstream) or 3' (downstream) of a gene under its control.
  • the distance between a promoter and a gene can be approximately the same as the distance between that promoter and the gene it controls in the gene from which the promoter is derived. Variation in the distance between a promoter and a gene can be accommodated without loss of promoter function.
  • promoter refers to a synthetic or naturally- derived molecule which is capable of conferring, activating or enhancing expression of a nucleic acid in a cell.
  • a promoter can comprise one or more specific transcriptional regulatory sequences to further enhance expression and/or to alter the spatial expression and/or temporal expression of same.
  • a promoter can also comprise distal enhancer or repressor elements, which can be located as much as several thousand base pairs from the start site of transcription.
  • a promoter can be derived from sources including viral, bacterial, fungal, plants, insects, and animals.
  • a promoter can regulate the expression of a gene component constitutively or differentially with respect to cell, the tissue or organ in which expression occurs or, with respect to the developmental stage at which expression occurs, or in response to external stimuli such as physiological stresses, pathogens, metal ions, or inducing agents.
  • promoters include the bacteriophage T7 promoter, bacteriophage T3 promoter, SP6 promoter, lac operator-promoter, tac promoter, SV40 late promoter, SV40 early promoter, RSV-LTR promoter, CMV IE promoter, EF-1 Alpha promoter, CAG promoter, SV40 early promoter or SV40 late promoter and the CMV IE promoter.
  • the term “substantially complementary” refers to a first sequence that is at least 60%, 65%, 70%, 75%, 80%, 85%, 90%, 95%, 97%, 98% or 99% identical to the complement of a second sequence over a region of 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 180, 270, 360, 450, 540, or more nucleotides or amino acids, or that the two sequences hybridize under stringent hybridization conditions.
  • the term "substantially identical” refers to a first and second sequence are at least 60%, 65%, 70%, 75%, 80%, 85%, 90%, 95%, 97%, 98% or 99% identical over a region of 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 180, 270, 360, 450, 540 or more nucleotides or amino acids, or with respect to nucleic acids, if the first sequence is substantially complementary to the complement of the second sequence.
  • the term "variant" when used to describe a nucleic acid refers to (i) a portion or fragment of a referenced nucleotide sequence; (ii) the complement of a referenced nucleotide sequence or portion thereof; (iii) a nucleic acid that is substantially identical to a referenced nucleic acid or the complement thereof; or (iv) a nucleic acid that hybridizes under stringent conditions to the referenced nucleic acid, complement thereof, or a sequences substantially identical thereto.
  • vector refers to a nucleic acid sequence containing an origin of replication.
  • a vector can be a viral vector, bacteriophage, bacterial artificial chromosome or yeast artificial chromosome.
  • a vector can be a DNA or RNA vector.
  • a vector can be a self-replicating extrachromosomal vector, and preferably, is a DNA plasmid.
  • a vector may comprise a combination of an amino acid with a DNA sequence, an RNA sequence, or both a DNA and an RNA sequence.
  • Variant can also mean a protein with an amino acid sequence that is substantially identical to a referenced protein with an amino acid sequence that retains at least one biological activity.
  • a conservative substitution of an amino acid i.e., replacing an amino acid with a different amino acid of similar properties (e.g., hydrophilicity, degree and distribution of charged regions) is recognized in the art as typically involving a minor change. These minor changes can be identified, in part, by considering the hydropathic index of amino acids, as understood in the art. Kyte et al., J. Mol. Biol.157: 105-132 (1982). The hydropathic index of an amino acid is based on a consideration of its hydrophobicity and charge.
  • Amino acids of similar hydropathic indexes can be substituted and still retain protein function.
  • amino acids having hydropathic indexes of ⁇ 2 are substituted.
  • the hydrophilicity of amino acids can also be used to reveal substitutions that would result in proteins retaining biological function.
  • a consideration of the hydrophilicity of amino acids in the context of a peptide permits calculation of the greatest local average hydrophilicity of that peptide, a useful measure that has been reported to correlate well with antigenicity and immunogenicity.
  • U.S. Patent No.4,554,101 incorporated fully herein by reference.
  • Substitution of amino acids having similar hydrophilicity values can result in peptides retaining biological activity, for example immunogenicity.
  • Substitutions can be performed with amino acids having hydrophilicity values within ⁇ 2 of each other. Both the hydrophobicity index and the hydrophilicity value of amino acids are influenced by the particular side chain of that amino acid. Consistent with that observation, amino acid substitutions that are compatible with biological function are understood to depend on the relative similarity of the amino acids, and particularly the side chains of those amino acids, as revealed by the hydrophobicity, hydrophilicity, charge, size, and other properties. [0322] As used herein, “conservative” amino acid substitutions may be defined as set out in Tables 1, 2, or 3 below.
  • fusion polypeptides and/or nucleic acids encoding such fusion polypeptides include conservative substitutions have been introduced by modification of polynucleotides encoding polypeptides of the disclosure.
  • Amino acids can be classified according to physical properties and contribution to secondary and tertiary protein structure.
  • a conservative substitution is a substitution of one amino acid for another amino acid that has similar properties.
  • Exemplary conservative substitutions are set out in Table 1.
  • Table 1 – Conservative Substitutions I Alternately, conservative amino acids can be grouped as described in Lehninger, (Biochemistry, Second Edition; Worth Publishers, Inc. NY, N.Y. (1975), pp.71-77) as set forth in Table 2.
  • Table 2 - Conservative Substitutions II [0326] Alternately, exemplary conservative substitutions are set out in Table 3. Table 3 - Conservative Substitutions III
  • polypeptides of the disclosure are intended to include polypeptides bearing one or more insertions, deletions, or substitutions, or any combination thereof, of amino acid residues as well as modifications other than insertions, deletions, or substitutions of amino acid residues.
  • Polypeptides or nucleic acids of the disclosure may contain one or more conservative substitution.
  • the term “more than one” of the aforementioned amino acid substitutions refers to 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, or 20 or more of the recited amino acid substitutions.
  • the term “more than one” may refer to 2, 3, 4, or 5 of the recited amino acid substitutions.
  • Polypeptides and proteins of the disclosure may be non-naturally occurring.
  • Polypeptides and proteins of the disclosure may contain one or more mutations, substitutions, deletions, or insertions that do not naturally-occur, rendering the entire amino acid sequence non-naturally occurring.
  • Polypeptides and proteins of the disclosure may contain one or more duplicated, inverted or repeated sequences, the resultant sequence of which does not naturally-occur, rendering the entire amino acid sequence non- naturally occurring.
  • Polypeptides and proteins of the disclosure may contain modified, artificial, or synthetic amino acids that do not naturally-occur, rendering the entire amino acid sequence non-naturally occurring.
  • sequence identity may be determined by using the stand-alone executable BLAST engine program for blasting two sequences (bl2seq), which can be retrieved from the National Center for Biotechnology Information (NCBI) ftp site, using the default parameters (Tatusova and Madden, FEMS Microbiol Lett., 1999, 174, 247-250; which is incorporated herein by reference in its entirety).
  • NCBI National Center for Biotechnology Information
  • identity when used in the context of two or more nucleic acids or polypeptide sequences, refer to a specified percentage of residues that are the same over a specified region of each of the sequences.
  • the percentage can be calculated by optimally aligning the two sequences, comparing the two sequences over the specified region, determining the number of positions at which the identical residue occurs in both sequences to yield the number of matched positions, dividing the number of matched positions by the total number of positions in the specified region, and multiplying the result by 100 to yield the percentage of sequence identity.
  • the residues of single sequence are included in the denominator but not the numerator of the calculation.
  • the term “endogenous” refers to nucleic acid or protein sequence naturally associated with a target gene or a host cell into which it is introduced.
  • the term “exogenous” refers to nucleic acid or protein sequence not naturally associated with a target gene or a host cell into which it is introduced, including non-naturally occurring multiple copies of a naturally occurring nucleic acid, e.g., DNA sequence, or naturally occurring nucleic acid sequence located in a non-naturally occurring genome location.
  • the disclosure provides methods of introducing a polynucleotide construct comprising a DNA sequence into a host cell.
  • introducing is intended presenting to the cell the polynucleotide construct in such a manner that the construct gains access to the interior of the host cell.
  • the methods of the disclosure do not depend on a particular method for introducing a polynucleotide construct into a host cell, only that the polynucleotide construct gains access to the interior of one cell of the host.
  • Methods for introducing polynucleotide constructs into bacteria, plants, fungi and animals are known in the art including, but not limited to, stable transformation methods, transient transformation methods, and virus-mediated methods.
  • Example 3 Preparation of COMPOUND NO.5a
  • Intermediate 4 was prepared in accordance with General Scheme A.1. Separation of intermediates 4a and 4b was achieved by TLC using DCM:Tol:EA (75:25:1).
  • Synthesis of COMPOUND NO.5a [0343] Pd/C (10mg) was added to intermediate 4a (31mg, 0.013mmol) in THF (5mL) after purging with N2. The mixture was stirred under H2 balloon at 40 o C overnight. The mixture was then filtered through a pad of celite and concentrated.
  • Example 7 Preparation of COMPOUND NO.9
  • Example 8 Preparation of COMPOUND NO.11
  • Example 10 Preparation of COMPOUND NO.16
  • COMPOUND NO.19 was prepared in accordance with General Scheme A.4. 1 H NMR (500 MHz, DMSO-d6) ⁇ 8.99 (s, 8H), 8.64 (s, 2H), 8.38 (s, 2H), 8.15 (s, 2H), 6.79 (s, 4H), 6.28 (s, 4H), 3.72 – 3.37 (m, 8H), 3.26 (s, 3H), 3.17 (s, 2H). MS (ESI): calcd.
  • Example 16 Preparation of COMPOUND NO.24 [0369]
  • COMPOUND NO.24 was prepared in accordance with General Scheme A.4.
  • 1 H NMR 500 MHz, DMSO
  • MS found 1294.6 [M+Na] + , calcd for [C64H83N3O25 1293.5].
  • Example 17 Preparation of COMPOUND NO.25
  • COMPOUND NO.25 was prepared in accordance with General Scheme A.4.
  • Example 18 Preparation of COMPOUND NO.29 [0373] COMPOUND NO.29 was prepared in accordance with General Scheme A.5. Off-white solid, 71 mg, yield 40%; MS (EI): calcd. for C 65 H78O 25 Na: 1281.4 [M+Na]; found: 1281. [0374]
  • Example 19 Preparation of COMPOUND NO.33 [0375] COMPOUND NO.33 was prepared in accordance with General Scheme A.6.
  • the cationic lipid COMPOUND NO.37 the phospholipid DOPC, the structural lipid cholesterol (Chol), 1,2-dimyristoyl-sn-glycerol methoxypolyethylene glycol (DMG-PEG2000; Avanti Polar Lipids, Alabaster, Alabama, USA), and Tri-GalNac-PEG2000- DSPE (“GalNac-PEG”) were combined to prepare LNP compositions.
  • Individual 25 mg/ml lipid stock solutions and 20 mg/mL additive stock comprising a compound of Formula (I) were prepared by solubilizing the lipids in 200-proof HPLC-grade ethanol and stock solutions were stored at -80° C until formulated.
  • the lipid and additive stock solutions were briefly allowed to equilibrate to room temp and then placed on a hot plate maintained at a temperature range of 45-55 o C. Subsequently, the hot lipid and additive stock solutions were combined to yield desired final mol percentages and allowed to cool down to room temperature.
  • a 1 mg/ml solution of the desired DNA to be incorporated into the LNPs was added to 150 mM sodium acetate buffer (pH 5.2) to form a stock solution and kept on ice. The ethanol phase was vigorously mixed with the nucleic acid in sodium acetate phase using the Precision Nanoassemblr instrument.
  • the resultant LNP compositions were then transferred to a Repligen Float-A-Lyzer dialysis device- having a molecular weight cut off (MWCO) of 8-10kDa (Spectrum Chemical Mfg. Corp, CA, USA) and processed by dialysis against phosphate buffered saline (PBS) (dialysate : dialysis buffer volume at least 1:200 v/v), pH 7.4 overnight at 4 o C (or alternatively room temperature for at least 4 hours), to remove the 25% ethanol and achieve a complete buffer exchange.
  • PBS phosphate buffered saline
  • Example 23 - LNP compositions comprising compounds of Formula (I) enhance delivery of DNA to liver cells in vivo shows the ability of LNP compositions of the present disclosure that comprise at least one compound of Formula (I) to enhance delivery of DNA to liver cells in vivo.
  • LNP compositions of the present disclosure were prepared comprising the following components at the following % moles: COMPOUND NO.37 (50% moles): DOPC (10% moles): cholesterol (38.5% moles): PEG-DMG (1% moles): GalNac-PEG (0.5% moles) and lipid:DNA (w/w) of 60:1. Additionally, each LNP composition comprised a compound of Formula (I) at varying compound:DNA weight ratios (5, 10, 12.5) and a DNA nanoplasmid encoding the fluc gene operably associated with the constitutive CMV promoter. One LNP composition was prepared without adding a compound of Formula (I). The compositions of the LNP compositions are listed in Table 4.
  • the DNA molecules were formulated within LNP compositions of the present disclosure as described in Table 4.
  • the LNP compositions of the present disclosure (0.5 mg/kg) were administered to the mice from each of the groups.
  • One group of mice was treated with vehicle (PBS, Thermo Fisher Scientific, USA) as a negative control.
  • Luciferase expression was measured by whole body luminescence imaging (BLI) of anesthetized mice at 48 hours post-administration using an IVIS Lumina in vivo imaging system (Perkin Elmer) according to the manufacturer’s instructions. Briefly, mice were anesthetized using isoflurane in oxygen, and placed supine on a heated stage. Mice were then administered D- luciferin (Perkin-Elmer #122799) IP, and BLI was performed. [0389] The results of BLI measurements (total flux [p/s]) are shown in FIG.1.
  • Example 24 – LNP compositions comprising compounds of Formula (I) enhance delivery of co-encapsulated DNA and RNA to liver cells in vivo [0390] This experiment shows the ability of LNP compositions of the present disclosure that comprise COMPOUND NO.9 of Formula (I) to enhance delivery of co-encapsulated DNA and RNA to liver cells in vivo.
  • FVIII expression indicates successful delivery by LNP compositions of a two-component, DNA/RNA system to liver cells, resulting in transposition of the FVIII transgene facilitated by SPB.
  • the compositions of the co-encapsulated LNPs are shown in Table 5, incorporating mRNA encoding active SPB and TTR-FVIII nanoplasmid DNA (SEQ ID NO: 9). All cytidine residues in the mRNA were 5-methylcytidine (5-MeC).
  • mice received either 0.5 mg/kg or 0.75 mg/kg of co-encapsulated LNP encapsulating mRNA and DNA at a 1:2 mRNA:DNA ratio.
  • One group of mice was treated with vehicle (PBS, Thermo Fisher Scientific, USA) as a negative control.
  • mice Prior to administration, mice were placed under anesthesia induced by isoflurane. For delivery, 50-80 ⁇ L of co-encapsulated LNP was drawn into a single 29 gauge insulin syringe, and delivered via intravenous (IV) through the retro-orbital sinus. On Day 6 post-treatment, plasma was collected from treated mice.
  • Example 25 - LNP compositions comprising compounds of Formula (I) enhance delivery of DNA to liver cells in vivo shows the ability of LNP compositions of the present disclosure that comprise at least one compound of Formula (I) to enhance delivery of DNA to liver cells in vivo.
  • LNP compositions of the present disclosure were prepared comprising the following components at the following % moles: COMPOUND NO.37 (50% moles): DOPC (10% moles): cholesterol (38.5% moles): PEG-DMG (1% moles): GalNac-PEG (0.5% moles) and lipid:DNA (w/w) of 60:1. Additionally, each LNP composition comprised a compound of Formula (I) at varying compound:DNA weight ratios (5, 10, 12.5) and a DNA nanoplasmid encoding the fluc gene operably associated with the constitutive CMV promoter. One LNP composition was prepared without adding a compound of Formula (I). The compositions of the LNP compositions are listed in Table 7.
  • the DNA molecules were formulated within LNP compositions of the present disclosure as described in Table 7.
  • the LNP compositions of the present disclosure (0.5 mg/kg) were administered to the mice from each of the groups.
  • One group of mice was treated with vehicle (PBS, Thermo Fisher Scientific, USA) as a negative control.
  • Luciferase expression was measured by whole body luminescence imaging (BLI) of anesthetized mice at 48 hours post-administration using an IVIS Lumina in vivo imaging system (Perkin Elmer) according to the manufacturer’s instructions. Briefly, mice were anesthetized using isoflurane in oxygen, and placed supine on a heated stage. Mice were then administered D- luciferin (Perkin-Elmer #122799) IP, and BLI was performed. [0401] The results of BLI measurements (total flux [p/s]) are shown in FIG.2.
  • Example 26 - LNP compositions comprising compounds of Formula (I) enhance delivery of DNA to liver cells in vivo This experiment shows the ability of LNP compositions of the present disclosure that comprise at least one compound of Formula (I) to enhance delivery of DNA to liver cells in vivo.
  • LNP compositions of the present disclosure were prepared comprising the following components at the following % moles: COMPOUND NO.37 (50% moles): DOPC (10% moles): cholesterol (38.5% moles): PEG-DMG (1% moles): GalNac-PEG (0.5% moles) and lipid:DNA (w/w) of 60:1. Additionally, each LNP composition comprised a compound of Formula (I) at varying compound:DNA weight ratios (5 or 10) and a DNA nanoplasmid encoding the fluc gene operably associated with the constitutive CMV promoter. One LNP composition was prepared without adding a compound of Formula (I).
  • mice Another group of mice was treated with a benchmark LNP composition comprising pentagalloylglucose, a polyphenol additive shown to enhance delivery of DNA to liver cells in vivo, as described in co-pending U.S. Patent Application No.63/678,021.
  • the compositions of the LNP compositions are listed in Table 8. Table 8 [0404]
  • the DNA molecules were formulated within LNP compositions of the present disclosure as described in Table 8.
  • the LNP compositions of the present disclosure (0.5 mg/kg) were administered to the mice from each of the groups.
  • mice were treated with vehicle (PBS, Thermo Fisher Scientific, USA) as a negative control.
  • Luciferase expression was measured by whole body luminescence imaging (BLI) of anesthetized mice at 48 hours post-administration using an IVIS Lumina in vivo imaging system (Perkin Elmer) according to the manufacturer’s instructions. Briefly, mice were anesthetized using isoflurane in oxygen, and placed supine on a heated stage. Mice were then administered D- luciferin (Perkin-Elmer #122799) IP, and BLI was performed. [0406] The results of BLI measurements (total flux [p/s]) are shown in Table 9.
  • the addition of a compound of Formula (I) to the LNP composition resulted in an increase in BLI of up to about 80-fold (D.1) compared to the LNP composition lacking an additive (D.3).
  • the LNP composition comprising the compound of Formula (I) showed higher potency at the lower compound of Formula (I) to DNA ratio (compare D1, 5:1 ratio to D2, 10:1 ratio).
  • the LNP composition at the lowest compound of Formula (I) to DNA ratio (D1, 5:1 ratio) showed a comparable or even slightly higher potency than the benchmark LNP composition, comprising a benchmark polyphenol additive at an additive:DNA ratio of 12.5:1.
  • Example 27 - LNP compositions comprising compounds of Formula (I) enhance delivery of DNA to liver cells in vivo
  • This experiment shows the ability of LNP compositions of the present disclosure that comprise at least one compound of Formula (I) to enhance delivery of DNA to liver cells in vivo.
  • a series of LNP compositions of the present disclosure were prepared. Each LNP composition comprised a compound of Formula (I) and varying GalNac (% moles). The compositions of the LNP compositions are listed in Table 10.
  • the DNA molecules were formulated within LNP compositions of the present disclosure as described in Table 10.
  • the LNP compositions of the present disclosure (0.5 mg/kg) were administered to the mice from each of the groups.
  • One group of mice was treated with vehicle (PBS, Thermo Fisher Scientific, USA) as a negative control.
  • Luciferase expression was measured by whole body luminescence imaging (BLI) of anesthetized mice at 48 hours post-administration using an IVIS Lumina in vivo imaging system (Perkin Elmer) according to the manufacturer’s instructions. Briefly, mice were anesthetized using isoflurane in oxygen, and placed supine on a heated stage.
  • the DNA molecules were formulated within LNP compositions of the present disclosure as described in Table 12.
  • the LNP compositions of the present disclosure were administered to the mice from each of the groups (0.5 mg/kg for the LNP compositions comprising DSPE-mPEG2k or 0.5 mg/kg, 0.25 mg/kg, or 0.1 mg/kg for the LNP composition comprising GalNac).
  • One group of mice was treated with vehicle (PBS, Thermo Fisher Scientific, USA) as a negative control.

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Abstract

Trihydroxybenzene containing compounds, compositions comprising the trihydroxybenzene containing compounds, methods of preparing such compounds and compositions, and the use of these compositions in gene delivery applications are disclosed.

Description

TRIHYDROXYBENZENE-CONTAINING COMPOUNDS, COMPOSITIONS COMPRISING TRIHYDROXYBENZENE-CONTAINING COMPOUNDS AND RELATED USES SEQUENCE LISTING [0001] The Sequence Listing XML associated with this application is provided electronically in XML format and is hereby incorporated by reference into the specification. The name of the XML file containing the Sequence Listing XML is “POTH-077_WO_SeqList.xml”. The XML file is 34,029 bytes in size, created on January 19, 2024, and is being submitted electronically via USPTO Patent Center. FIELD [0002] The present invention relates generally to trihydroxybenzene-containing compounds, compositions comprising the trihydroxybenzene-containing compounds, and the use of these compositions in gene delivery. BACKGROUND [0003] There has been a long-felt but unmet need in the art for compositions and methods for delivering nucleic acids to cells and for genetically modifying cells in vivo, ex vivo and in vitro. Widely accepted gene delivery and genetic modification techniques, such as the use of viral vectors, including AAVs, can cause acute toxicity and harmful side-effects in patients. The present disclosure provides improved compositions, methods and kits for the delivery of nucleic acids to various types of cells, including hepatocytes, in vivo, ex vivo and in vitro. More specifically, the present disclosure provides improved lipid nanoparticle compositions and methods of using the same. These lipid nanoparticle compositions and methods allow for the delivery of nucleic acids to cells with high efficiency and low toxicity. Thus, the compositions and methods of the present disclosure have wide applicability to a diverse number of fields, including gene therapy. SUMMARY [0004] In some aspects, provided are novel compounds. In one aspect, the novel compound is a compound of Formula (I): Formula (I) or a salt thereof, wherein: A is:
; each B is independently or in which * indicates attachment to A and ** indicates attachment to C, each C is independently , C6 – C18 alkyl, or , each X is independently O, NH, or absent, each y is independently an integer ranging from 0 to 3; each R1 is independently C1 – C10 alkyl or absent, m is an integer ranging from 4 to 7; n is an integer ranging from 3 to 8, and p is an integer ranging from 5 to 8,
wherein when A is , , , or , at least one occurrence of C is C6 – C18 alkyl or , and wherein when A is and m is 4, at least one occurrence of C is . [0005] In some aspects, provided are novel lipid nanoparticles (“LNPs”) comprising a novel compound. In one aspect, the novel compound is a compound of Formula (I). [0006] In some aspects, provided are pharmaceutical compositions, comprising a composition of the present disclosure and at least one pharmaceutically-acceptable excipient or diluent. [0007] In some aspects, provided are methods of delivering at least one nucleic acid to at least one cell comprising contacting the at least one cell with at least one composition of the present disclosure. [0008] In some aspects, provided are methods of genetically modifying at least one cell comprising contacting the at least one cell with at least one composition of the present disclosure. [0009] In some aspects, provided are methods of treating at least one disease or disorder in a subject in need thereof comprising administering to the subject at least one therapeutically effective amount of at least one composition of the present disclosure. [0010] In some aspects, provided are methods of delivering at least one nucleic acid to at least one cell comprising contacting the at least one cell with at least one composition of the present disclosure. [0011] In some aspects, provided are cells modified according to methods of the present disclosure. [0012] Any of the aspects and/or embodiments described herein can be combined with any other aspect and/or embodiment described herein. [0013] Unless otherwise defined, all technical and scientific terms used herein have the same meaning as commonly understood by one of ordinary skill in the art to which this disclosure belongs. In the Specification, the singular forms also include the plural unless the context clearly dictates otherwise; as examples, the terms “a,” “an,” and “the” are understood to be singular or plural and the term “or” is understood to be inclusive. By way of example, “an element” means one or more element. Throughout the specification the word “comprising,” or variations such as “comprises” or “comprising,” will be understood to imply the inclusion of a stated element, integer or step, or group of elements, integers or steps, but not the exclusion of any other element, integer or step, or group of elements, integers or steps. About can be understood as within 10%, 9%, 8%, 7%, 6%, 5%, 4%, 3%, 2%, 1%, 0.5%, 0.1%, 0.05%, or 0.01% of the stated value. Unless otherwise clear from the context, all numerical values provided herein are modified by the term “about.” [0014] Although methods and materials similar or equivalent to those described herein can be used in the practice or testing of the present disclosure, suitable methods and materials are described below. All publications, patent applications, patents, and other references mentioned herein are incorporated by reference in their entirety. The references cited herein are not admitted to be prior art to the claimed invention. In the case of conflict, the present Specification, including definitions, will control. In addition, the materials, methods, and examples are illustrative only and are not intended to be limiting. Other features and advantages of the disclosure will be apparent from the following detailed description and claims. BRIEF DESCRIPTION OF THE DRAWINGS [0015] FIG.1 shows whole body luminescence imaging (BLI) measurements at 48 hours post- administration of mice treated with LNP compositions of the present disclosure either comprising, or lacking, at least one compound of Formula (I). [0016] FIG.2 shows BLI measurements of anesthetized mice at 48 hours post-administration of mice treated with LNP compositions of the present disclosure either comprising, or lacking, at least one compound of Formula (I). DETAILED DESCRIPTION [0017] The present disclosure provides novel trihydroxybenzene-containing compounds, novel lipid nanoparticle compositions (LNPs) comprising the novel compounds, methods for preparing the LNPs, and methods for using same. In a non-limiting example, the compositions and methods of the present limiting disclosure can be used for gene delivery. In a non-limiting example, the compositions and methods of the present disclosure can be broadly used to deliver a nucleic acid to liver cells, in vivo, ex vivo or in vitro, for the treatment of certain diseases and disorders, including, but not limited to liver disorders. In a non-limiting example, the compositions and methods of the present disclosure can be broadly used to deliver a nucleic acid to induce the expression of a secreted therapeutic protein. [0018] Compositions of the Present Disclosure—Lipid Nanoparticles [0019] The present disclosure provides a composition comprising at least one lipid nanoparticle comprising at least one compound of the present disclosure and at least one cationic lipid. In some aspects, a lipid nanoparticle can further comprise at least one nucleic acid molecule. In some aspects, a lipid nanoparticle can further comprise at least one structural lipid. In some aspects, a lipid nanoparticle can further comprise at least one phospholipid. In some aspects, a lipid nanoparticle can further comprise at least one PEGylated lipid. [0020] Compounds [0021] In one aspect, the present disclosure provides compounds of Formula (I): Formula (I) or a salt thereof, wherein: A is: , , , , , , , , , , , , or ; each B is independently or in which * indicates attachment to A and ** indicates attachment to C, each C is independently , C6 – C18 alkyl, or , each X is independently O, NH, or absent, each y is independently an integer ranging from 0 to 3, each R1 is independently C1 – C10 alkyl or absent, m is an integer ranging from 4 to 7; n is an integer ranging from 3 to 8, and p is an integer ranging from 5 to 8, wherein when A is , , , or , at least one occurrence of C is C6 – C18 alkyl or , wherein when A is and m is 4, at least one occurrence of C is . [0022] In some aspects, each X is independently O. [0023] In some aspects, each X is independently NH. [0024] In some aspects, each X is independently NH or absent. [0025] In some aspects, each B is independently . [0026] In some aspects, each B is independently or . [0027] In some aspects, each B is independently . [0028] In some aspects, each B is independently or . [0029] In some aspects, each B is independently . [0030] In some aspects, A is . [0031] In some aspects, A is selected from: , , , , or . [0032] In some aspects, each C is independently . [0033] In some aspects, A is and each C is independently or C6 – C18 alkyl, wherein at least one occurrence of C is C6 – C18 alkyl.
[0034] In some aspects, A is and each C is independently or wherein at least one occurrence of C is . [0035] In some aspects, A is and each C is independently or C6 – C18 alkyl, wherein at least one occurrence of C is C6 – C18 alkyl.
[0036] In some aspects, A is and each C is independently or , wherein at least one occurrence of C is .
[0037] In some aspects, A is , m is 4, and each C is independently or , wherein at least one occurrence of C is . [0038] In some aspects, the compound of Formula (I) is selected from: , , ,
, , or
. [0039] It will be understood that the compounds of any one of the formulas disclosed herein and any pharmaceutically acceptable salts thereof, comprise stereoisomers, mixtures of stereoisomers, polymorphs of all isomeric forms of said compounds. [0040] It will be understood that while compounds disclosed herein may be presented without specified configuration (e.g., without specified stereochemistry). Such presentation intends to encompass all available isomers, tautomers, regioisomers, and stereoisomers of the compound. In some embodiments, the presentation of a compound herein without specified configuration intends to refer to each of the available isomers, tautomers, regioisomers, and stereoisomers of the compound, or any mixture thereof. [0041] It is to be understood that the compounds of any formula described herein include the compounds themselves, as well as their salts, and their solvates, if applicable. A salt, for example, can be formed between an anion and a positively charged group (e.g., amino) on a substituted compound disclosed herein. Suitable anions include chloride, bromide, iodide, sulfate, bisulfate, sulfamate, nitrate, phosphate, citrate, methanesulfonate, trifluoroacetate, glutamate, glucuronate, glutarate, malate, maleate, succinate, fumarate, tartrate, tosylate, salicylate, lactate, naphthalenesulfonate, and acetate (e.g., trifluoroacetate). [0042] It will be understood that in any of the formulae described herein, when a “-” is used to indicate linkage between two variables (e.g., A-B), the linkage could be one or more covalent bonds. [0043] General Methods for the Preparation of Compounds of Formula (I) of the Present Disclosure [0044] Compounds of Formula (I) can be prepared using the reagents, intermediates, precursors, methods and schemes disclosed herein or using other commercially available reagents and methods known to those skilled in the art. [0045] General Procedure for Synthesis of Compounds (A) [0046] In general, the first step in preparation of some compounds of Formula (I) of the present disclosure is the selection of a core compound to prepare the multivalent “A” segment precursor. For General Procedure A, suitable core compounds include saturated or unsaturated, linear, branched, or cyclic carbon polyols; carbohydrate compounds including monosaccharides, disaccharides, oligosaccharides, cyclodextrins, chitosan; linear or branched polyethylene amine, dendrimers, and poly L lysine. [0047] Scheme A.1 [0048] Synthesis of intermediate 1 [0049] To 3,4,5-tris(benzyloxy)benzoic acid (3.65 g, 3.6 eq) in dichloromethane (DCM, 100 mL) was added 4-dimethylaminopyridine (DMAP, 1g, 3.6 eq), 2-(hydroxymethyl)propane-1,3- diol (244 mg, 2.3 mmol, 1 eq) and 1-Ethyl-3-(3-dimethylaminopropyl)carbodiimide (EDCI, 1.58 g, 3.6 eq). The resulting mixture was stirred at room temperature for approximately 60 hours, then washed with 1N HCl, saturated NaHCO3 and brine. The combined organic phase was dried over Na2SO4 and concentrated. Purification by column chromatography (ethyl acetate/ hexane) afforded intermediate 1 (3 g, 95%) as a white solid. [0050] Synthesis of Compound 2 [0051] Pd/C (60mg) was added to intermediate 1 (650mg, 0.47mmol) in THF (20mL) after purging with N2. The mixture was stirred under H2 ballon at room temperature for 3 days. The mixture was then filtered through a pad of celite and concentrated. Purification by column chromatography (Methanol/ DCM) afforded Compound 2 (140mg, 53%) as a white solid.1H NMR (500 MHz, Acetone) δ 7.23 – 7.09 (m, 6H), 4.50 (s, 6H), 2.81 (q, J = 6.1 Hz, 1H). MS found 584.9 [M+Na]+, calcd for [C25H22O15=562.1] [0052] Scheme A.2 [0053] Syntheses of Compounds 9 and 11 [0054] A mixture of D-mannitol (100mg, 0.549 mmol) and 3,4,5-tri-benzyl benzoic acid (2.18 g, 1.5 eq per hydroxyl) in dry DCM 20 ml was treated with DMAP (500 mg, 4.1 mmol) and N,N′- Dicyclohexylcarbodiimide (DCC, 814 mg, 3.95 mmol) at room temperature. The resulting reaction mixture was stirred at 42oC for 24 hrs until most of the starting material disappeared. After cooling down the reaction mixture, the residue was filtered via celite pad and washed with cold 50% DCM in hexane and concentrated. The crude residue was purified to get desired intermediate 8 (327 mg, 22% yield) in a white solid. [0055] The Bn protected precursor 8 was dissolved in THF (10 ml) followed by addition of Pd/C (30mg) and kept stirring under H2 atmosphere at 42oC for 24 hrs. After filtering via celite pad, the crude product was obtained and precipitated in a mixture of solvents DCM and hexane to get the desired final product Compound 9 (130 mg, 82% yield). [0056] Scheme A.3 [0057] In accordance with Scheme A.2, intermediate 12 was obtained in 21% yield. After treatment with camphorsulfonic acid (CSA, 0.05 eq) in a mixture of solvents DCM/MeOH (0.5M) at room temperature overnight, the desired next intermediate 13 was obtained in 75% yield after neutralization and purification by silica gel chromatography. Then acylation and hydrogenation were carried out sequentially to afford the desired Compound 15 after precipitation with DCM/ether as white solid. [0058] Scheme A.4
[0059] Synthesis of Compound 24 [0060] The mixture of PEA 2 (103 mg, 1 mmol) and 1,2-epoxyl pentane (473mg) was heated to 78oC for 48 hrs to get E5-PEA2, which was acylated with benzoic acid in accordance with Scheme A.2 to get intermediate 23, which was purified by silica gel chromatography in 21 % yield. After hydrogenation, desired Compound 24 was obtained as a white solid. [0061] Synthesis of Intermediate 18 [0062] To a solution of 3,4,5-Tribenzyloxybenzoic acid (2 mmol, 880 mg) in dry DMF (5 mL) was added Hexafluorophosphate Azabenzotriazole Tetramethyl Uronium (HATU, 2.4 mmol, 920 mg) and DIEA (10 mmol). The mixture was heated at 45oC for 30 min before adding polyamine PEA3 (0.8 reactive amine per acid); The mixture was kept at the same temperature for another 10 h before quenching with sat. NaHCO3 (200 mL). The mixture was washed with DCM (3 x 200 mL) and brine (3 x 200 mL). The combined organic layer was dried over Na2SO4 and concentrated under vacuum. The crude was purified by column chromatography (DCM:MeOH = 20:1, v/v) to afford desired intermediate 18 as colorless to brown oil in a yield of 30-55%. [0063] Synthesis of Compound 19 [0064] To a solution of intermediate 18 (0.5 mmol) in dry THF (4 mL) was added wet Pd/C (10% wt) in the presence of H2 gas. The mixture was kept at the same temperature for 24-48 h depending on the number of benzyl protection groups. After cooling down, the Pd/C was removed by centrifuging and ice cold MeOH/ether solution (1:10, v/v) was added to the filtrate. The precipitate was collected and dried under vacuum to afford the desired Compound 19 as pale-yellow powder in a yield of 20-45%. [0065] Scheme A.5
[0066] Synthesis of intermediate 26 [0067] In a 250 mL round bottom flask, cholesteryl hemisuccinate (2.0 g, 1.0 eq, CAS No 1510- 21-0), EDC (0.95 g, 1.2 eq) and DMAP (0.1 g, 0.2 eq) were taken in DCM (50 mL). The solution was then stirred for 15 minutes at room temperature before the addition of 2,3,4,6-tetra-O- benzyl-alpha-glucopyranose (2.22 g, 1.0 eq, CAS No 6564-72-3) in one portion. The reaction was then stirred for 2 days at room temperature. After pouring in 100 mL deionized water and stirring for 10 minutes, both layers were separated, and the aqueous layer was extracted with DCM (4 x 50 mL). Combined DCM extracts were washed with brine, dried over Na2SO4, filtered and evaporated to dryness. The crude was purified by silica gel flash chromatography with 5- 10% EtOAc/hexanes. [0068] Synthesis of intermediate 27 [0069] Intermediate 26 (2.2 g) was dissolved in THF (50 mL) and 10% Pd/C (330 mg, 15% w/w) was added in one portion. The resulting dark suspension was stirred under hydrogen atmosphere for 3 days at 40°C. The reaction was filtered through celite and rinsed with DCM (4 x 50 mL). The filtrate was evaporated to dryness and continued to the next reaction without purification. [0070] Synthesis of intermediate 28 [0071] In a 100 mL round bottom flask, 3,4,5-tribenzyloxybenzoic acid (751 mg, 5.0 eq, CAS No 1486-48-2) was combined with EDC (410 mg, 6.0 eq) and DMAP (91 mg, 2.0 eq) in DCM (40 mL). The suspension was then stirred for 15 minutes at room temperature before adding intermediate 27 (220 mg, 1.0 eq). The resulting reaction was stirred for 2 days at room temperature.50 mL deionized water was poured in and stirred for 10 minutes. Both layers were separated, and the aqueous layer was extracted with DCM (4 x 50 mL). Combined DCM extracts were washed with brine (50 mL), dried over Na2SO4, filtered and evaporated to dryness. The crude was purified by silica gel flash chromatography with 5-10% EtOAc/hexanes. [0072] Synthesis of Compound 29 [0073] In a 100 mL round bottom flash, intermediate 28 (330 mg) was taken in THF (50 mL) and 10% Pd/C (66 mg, 20% w/w) was added in one portion. The dark suspension was stirred under hydrogen atmosphere for 3 days at 40°C. The cooled reaction was filtered through celite and rinsed with THF/DCM (4 x 50 mL, 1:1). The filtrate was evaporated to dryness and the residue was precipitated with DCM (2x). [0074] Off-white solid, 71 mg, yield 40%; MS (EI): calcd. for C65H78O25Na: 1281.4 [M+Na]; found: 1281. [0075] Scheme A.6
[0076] Synthesis of Compound 33 [0077] In a flame dried 10 ml round flask equipped with magnetic stir bar was added CHS (2.0 g, 4.12 mol) and EDCI (1.02 g, 1.3 eq) in dry DCM at room temperature. The resulting mixture was stirred for 30 mins followed by the addition of 1,2-5,6-Di-O isopropylidene-D-mannitol (971 mg, 0.9 eq) and DMAP (100mg, 0.2 eq) in three portions. The reaction mixture was stirred at room temperature and the reaction was quenched by sat. Na2HCO3 the next day. Following a standard workup, the crude product was applied to silica gel chromatography to afford desired intermediate 30 (947 mg) in white form (35% yield). [0078] Intermediate 30 (100 mg, 0.137mmol) was treated with 1 ml mixture of solvents AcOH/MeOH/H2O (3/1/1) at 70°C for 6 hrs and TLC showed a major polar spot generated by TLC (10%) and then rotor-evaporated to dryness. The residue was applied to silica gel chromatography to get intermediate 31 (56mg, 63% yield), which was stirred with 3,4,5-tri-OBn Benzoic acid (246 mg, 0.56 mmoL) and dry DCM (5 ml) in the presence of DCC (126 mg, 0.616 mmol) for 5 mins at room temperature to get mostly clear solution followed by addition of DMAP (0.26 mg, 0.216 mmol) and heating to 42°C. The resulting reaction mixture was stirred at the same temperature for 24 hrs to get crude product, which was filtered, concentrated and purified to get intermediate 32 (85 mg, 36% yield). Hydrogenation of intermediate 32 in the presence of Pd-C in THF at 46°C overnight afforded the final target Compound 33 (37 mg, 85% yield) after precipitation of crude product with DCM. [0079] Compound 33: 1H NMR (499 MHz, Acetone) δ 8.17 (br, 15H), 7.24 – 6.95 (m, 10H), 5.99-5.59 (m, 4H), 4.74-4.39 (m, 5H), 2.77 – 2.52 (m, 4H), 2.21 – 1.45 (m, 10H), 1.42 – 0.82 (m, 36H); MS (EI): calcd. for C72H84O29Na: 1435.5 [M+Na]; found: 1435.9. [0080] Scheme A.7 [0081] Synthesis of intermediate 34 [0082] In a 250 mL round-bottom flask, 2,2,5-trimethyl-1,3-dioxane-5-carboxylic acid (5.0 g, 1.0 eq), EDC.HCl (8.0 g, 1.5 eq), and DMAP (1.0 g, 0.3 eq) are taken in dichloromethane (150 mL). The solution was stirred for 20 minutes at room temperature before adding cholesterol (11.6 g, 1.05 eq) in one portion and the resulting reaction mixture was allowed to stir for 20 h at room temperature. Water (50 mL) was added to the reaction mixture, which was then stirred for 10 minutes and both layers were separated. The aqueous layer was extracted with DCM (4 x 50 mL); combined layers were washed with brine (50 mL), dried over Na2SO4, filtered and evaporated. The crude was purified by silica gel flash chromatography using 5% EtOAc/hexane eluants. [0083] Synthesis of intermediate 35 [0084] In a 250 mL round bottom flask, intermediate 34 (416 mg) was dissolved in tetrahydrofuran (20 mL) and 1N hydrochloric acid (10 mL) was added. The resulting suspension was stirred at room temperature and monitored by TLC. The starting material disappeared on TLC in 3h and the reaction was then diluted with deionized water (50 mL). The reaction was extracted with DCM (4 x 50 mL); combined extracts were washed with brine (50 mL), dried over Na2SO4, filtered and evaporated. The crude product (310 mg (yield 80%), off-white solid) proceeded to the next step without any purification. [0085] Synthesis of intermediate 36 [0086] In a 250 mL round-bottom flask, 2,2,5-trimethyl-1,3-dioxane-5-carboxylic acid (354 mg, 2.5 eq), EDC.HCl (470 mg, 3.0 eq), and DMAP (101 mg, 1.0 eq) are taken in dichloromethane (40 ml). The solution was stirred for 20 minutes at room temperature before adding intermediate 35 (410 mg, 1.0 eq) in one portion and the resulting reaction was allowed to stir for 20 h at room temperature. Water (50 mL) was added to the reaction mixture, which was then stirred for 10 minutes and both layers were separated. The aqueous layer was extracted with DCM (4 x 50 mL); combined layers were washed with brine (50 mL), dried over Na2SO4, filtered and evaporated. The crude was purified by silica gel flash chromatography using 10-15% EtOAc/hexane eluants. [0087] Synthesis of intermediate 37 [0088] In a 250 mL round bottom flask, intermediate 36 (220 mg) was dissolved in tetrahydrofuran (20 mL) and 1N hydrochloric acid (10 mL) was added. The resulting suspension was stirred at room temperature and monitored by TLC. The starting material disappeared on TLC in 3h and the reaction was then diluted with deionized water (50 mL). The reaction was extracted with DCM (4 x 50 mL); combined extracts were washed with brine (50 mL), dried over Na2SO4, filtered and evaporated. The crude product (210 mg, off-white solid) proceeded to the next step without any purification. [0089] Synthesis of intermediate 38 [0090] In a 250 mL round-bottom flask, 3,4,5-tribenzyloxybenzoic (755 mg, 6.0 eq), EDC.HCl (354 mg, 6.0 eq), and DMAP (78 mg, 2.0 eq) are taken in dichloromethane (40 mL). The solution was stirred for 20 minutes at room temperature before adding intermediate 37 (210 mg, 1.0 eq) in one portion and the resulting reaction was allowed to stir for 20 h at room temperature. Water (50 mL) was added to the reaction mixture, which was then stirred for 10 minutes and both layers were separated. The aqueous layer was extracted with DCM (4 x 50 mL); combined layers were washed with brine (50 mL), dried over Na2SO4, filtered and evaporated. The crude product was purified by silica gel flash chromatography using 20-25% EtOAc/hexane eluants. [0091] Synthesis of Compound 39 [0092] In a 250 mL round-bottom flask, intermediate 38 (2.33 g) was dissolved in THF (75 mL) and 10% Pd/C (510 mg, 20% w/w) was added in one portion. The dark suspension was stirred under hydrogen atmosphere (1 balloon) at 40°C for 20 h. The cooled reaction was filtered through celite, and the celite was rinsed with 20% MeOH/DCM (3 x 50 mL). The filtrate was evaporated to dryness and the crude residue was purified by silica gel flash chromatography with 8% MeOH/DCM eluant. [0093] Compound 39: 626 mg (yield 48%), off-white solid; MS (ES): m/z calcd for C70H88O26Na (M+Na), 1367; found, 1367. [0094] Scheme A.8 [0095] Synthesis of intermediate 40 [0096] In a 250 mL round-bottom flask, 2,2,5-trimethyl-1,3-dioxane-5-carboxylic acid (1.54 g, 1.0 eq), EDC.HCl (1.98 g, 1.2 eq), and DMAP (0.53 g, 0.5 eq) are taken in dichloromethane (50 ml). The solution was stirred for 20 minutes at room temperature before adding intermediate 37 (0.95 g, 0.15 eq) in dichloromethane (10 mL) and the resulting reaction was allowed to stir for 20 h at room temperature. Water (50 mL) was added to the reaction mixture, which was then stirred for 10 minutes and both layers were separated. The aqueous layer was extracted with DCM (4 x 50 mL); combined layers were washed with brine (50 mL), dried over Na2SO4, filtered and evaporated. The crude was purified by silica gel flash chromatography using 10-15% EtOAc/hexane eluants. [0097] Synthesis of intermediate 41 [0098] In a 250 mL round bottom flask, intermediate 40 (1.2 g) was dissolved in tetrahydrofuran (20 mL) and 1N hydrochloric acid (10 mL) was added. The reaction was stirred for 16 h at room temperature and then diluted with deionized water (50 mL). The reaction was extracted with DCM (4 x 50 mL); combined extracts were washed with brine (50 mL), dried over Na2SO4, filtered and evaporated. The crude proceeded to the next step without any purification. [0099] Synthesis of intermediate 42 [0100] In a 250 mL round-bottom flask, 3,4,5-tribenzyloxybenzoic (4.15 g, 10.0 eq), EDC.HCl (2.71 g, 15.0 eq), and DMAP (0.6 g, 5.0 eq) are taken in dichloromethane (50 mL). The solution was stirred for 20 minutes at room temperature before adding intermediate 41 (1.13 g, 1.0 eq) in dichloromethane (20 mL) and the resulting reaction was allowed to stir for 20 h at room temperature. Water (50 mL) was added to the reaction mixture, which was then stirred for 10 minutes and both layers were separated. The aqueous layer was extracted with DCM (4 x 50 mL); combined layers were washed with brine (50 mL), dried over Na2SO4, filtered and evaporated. The crude was purified by silica gel flash chromatography using 8-15% EtOAc/hexane eluants. [0101] Synthesis of Compound 43 [0102] In a 250 mL round-bottom flask, intermediate 42 (1.33 g) was dissolved in THF (50 mL) and 10% Pd/C (360 mg, 20% w/w) was added in one portion. The dark suspension was stirred under hydrogen atmosphere (1 balloon) at 40°C for 20 h. The cooled reaction was filtered through celite, and the celite was rinsed with 20% MeOH/DCM (3 x 50 mL). The filtrate was evaporated to dryness and the crude residue was purified by silica gel flash chromatography with 8-10% MeOH/DCM eluant. [0103] Compound 43: 303 mg (yield 42%), off-white solid; MS (ES): m/z calcd for C118H164O54 (M+H), 2418; found, 2418. Lipid Nanoparticles of the Present Disclosure [0104] Nucleic acids, such as DNA molecules, can be delivered to cells using one or more lipid nanoparticle compositions and methods of making the same, as described in International Patent Application No. PCT/US2024/012245, the contents of which are incorporated herein by reference in its entirety. [0105] The present disclosure provides lipid nanoparticles (LNPs) comprising one or more compounds of Formula (I). In addition to the one or more compounds of Formula (I), the LNPs of the present disclosure can comprise one or more additional LNP components, as described below. [0106] Cationic Lipid [0107] In some aspects, an LNP of the present disclosure can comprise at least about 2.5%, or at least about 5%, or at least about 7.5%, or at least about 10%, or at least about 12.5%, or at least about 15%, or at least about 17.5%, or at least about 20%, or at least about 22.5%, or at least about 25%, or at least about 27.5%, or at least about 30%, or at least about 32.5%, or at least about 35%, or at least about 37.5%, or at least about 40%, or at least about 42.5%, or at least about 45%, or at least about 47.5%, or at least about 50%, or at least about 52.5%, or at least about 55%, or at least about 57.5% or at least about 60%, or at least about 62.5%, or at least about 65%, or at least about 67.5%, or at least about 70% of at least one cationic lipid by moles. [0108] In some aspects, the cationic lipid is COMPOUND NO.37, comprising the following structure: [0109] The synthetic route for COMPOUND NO.37 is shown in General Scheme E.1. This two-step sequence begins with an esterification reaction between trans-4-pentylcyclohexane carboxylic acid and hydroxy substituted alkyl bromides of different lengths (C3, C5, and C7) catalyzed by N-Ethyl-N′-(3-dimethylaminopropyl)carbodiimide hydrochloride (EDC-HCl) and N,N-Dimethylpyridin-4-amine (DMAP). The corresponding ester which bears a bromide as a functional handle reacts with hydroxy substituted amines (Hn, where n = 2, 3, or 4) to give the target compounds.
[0110] Following the general protocol for amine alkylation described in General Scheme E.1, amine H3 (22 mg) was combined with BC6B5C (442 mg) and DIPEA (200 μL) in THF/CH3CN (1:1, 0.8 mL). After the reaction, the crude was purified by 6% MeOH/DCM eluants. Brown oil, 127 mg (36%); 1H NMR (499 MHz, CDCl3) δ 4.12 (t, J = 4.8 Hz, 12H), 3.81 – 3.75 (m, 2H), 2.65 (s, 2H), 2.39 (td, J = 12.8, 6.8 Hz, 5H), 2.32 (t, J = 7.5 Hz, 4H), 2.22 (tt, J = 12.2, 3.6 Hz, 4H), 1.98 – 1.91 (m, 8H), 1.84 – 1.76 (m, 8H), 1.72 – 1.60 (m, 7H), 1.50 (s, 4H), 1.44 – 1.13 (m, 49H), 0.95 – 0.84 (m, 20H); LC-MS: Rt 9.504 min, m/z calculated [M+H]: 1200.92, found 1200.75. [0111] In some aspects, an LNP of the present disclosure can comprise at least about 2.5%, or at least about 5%, or at least about 7.5%, or at least about 10%, or at least about 12.5%, or at least about 15%, or at least about 17.5%, or at least about 20%, or at least about 22.5%, or at least about 25%, or at least about 27.5%, or at least about 30%, or at least about 32.5%, or at least about 35%, or at least about 37.5%, or at least about 40%, or at least about 42.5%, or at least about 45%, or at least about 47.5%, or at least about 50%, or at least about 52.5%, or at least about 55%, or at least about 57.5% or at least about 60%, or at least about 62.5%, or at least about 65%, or at least about 67.5%, or at least about 70% of COMPOUND NO.37 by moles. [0112] Structural Lipid [0113] In some aspects, an LNP can further comprise at least about 2.5%, or at least about 5%, or at least about 7.5%, or at least about 10%, or at least about 12.5%, or at least about 15%, or at least about 17.5%, or at least about 20%, or at least about 22.5%, or at least about 25%, or at least about 27.5%, or at least about 30%, or at least about 32.5%, or at least about 35%, or at least about 37.5%, or at least about 40%, or at least about 42.5%, or at least about 45%, or at least about 47.5%, or at least about 50%, or at least about 52.5%, or at least about 55%, or at least about 57.5% or at least about 60%, or at least about 62.5%, or at least about 65%, or at least about 67.5%, or at least about 70% of at least one structural lipid by moles. [0114] In some aspects, a structural lipid can be a steroid. In some aspects, a structural lipid can be a sterol. In some aspects, a structural lipid can comprise cholesterol. In some aspects, a structural lipid can comprise ergosterol. In some aspects, a structural lipid can be a phytosterol. [0115] In some aspects, the at least one structural lipid is a mixture of two structural lipids. [0116] Phospholipid [0117] In some aspects, an LNP can further comprise at least about 2.5%, or at least about 5%, or at least about 7.5%, or at least about 10%, or at least about 12.5%, or at least about 15%, or at least about 17.5%, or at least about 20%, or at least about 22.5%, or at least about 25%, or at least about 27.5%, or at least about 30%, or at least about 32.5%, or at least about 35%, or at least about 37.5%, or at least about 40%, or at least about 42.5%, or at least about 45%, or at least about 47.5%, or at least about 50%, or at least about 52.5%, or at least about 55%, or at least about 57.5% or at least about 60%, or at least about 62.5%, or at least about 65%, or at least about 67.5%, or at least about 70% of at least one phospholipid by moles. [0118] As used herein, the term “phospholipid” is used in its broadest sent to refer to any amphiphilic molecule that comprises a polar (hydrophilic) headgroup comprising phosphate and two hydrophobic fatty acid chains. In some aspects, a phospholipid can comprise dioleoylphosphatidylethanolamine (DOPE). In some aspects, a phospholipid can comprise 1,2- Distearoyl-sn-glycero-3-phosphocholine (DSPC). In some aspects, a phospholipid can comprise 1,2-Dioleoyl-sn-glycero-3-phosphocholine (DOPC). In some aspects, a phospholipid can comprise DPPC (1,2-Dipalmitoyl-sn-glycero-3-phosphocholine). In some aspects, a phospholipid can comprise DDPC (1,2-Didecanoyl-sn-glycero-3-phosphocholine), DEPA-NA (1,2-Dierucoyl-sn-glycero-3-phosphate (Sodium Salt)), DEPC (1,2-Dierucoyl-sn-glycero-3- phosphocholine), DEPE (1,2-Dierucoyl-sn-glycero-3-phosphoethanolamine), DEPG-NA (1,2- Dierucoyl-sn-glycero-3[Phospho-rac-(1-glycerol) (Sodium Salt)), DLOPC (1,2-Dilinoleoyl-sn- glycero-3-phosphocholine), DLPA-NA (1,2-Dilauroyl-sn-glycero-3-phosphate (Sodium Salt)), DLPC (1,2-Dilauroyl-sn-glycero-3-phosphocholine), DLPE (1,2-Dilauroyl-sn-glycero-3- phosphoethanolamine), DLPG-NA (1,2-Dilauroyl-sn-glycero-3[Phospho-rac-(1-glycerol) (Sodium Salt)), DLPG-NH4 (1,2-Dilauroyl-sn-glycero-3[Phospho-rac-(1-glycerol) (Ammonium Salt)), DLPS-NA (1,2-Dilauroyl-sn-glycero-3-phosphoserine (Sodium Salt)), DMPA-NA (1,2- Dimyristoyl-sn-glycero-3-phosphate (Sodium Salt)), DMPC (1,2-Dimyristoyl-sn-glycero-3- phosphocholine), DMPE (1,2-Dimyristoyl-sn-glycero-3-phosphoethanolamine), DMPG-NA (1,2-Dimyristoyl-sn-glycero-3[Phospho-rac-(1-glycerol) (Sodium Salt)), DMPG-NH4 (1,2- Dimyristoyl-sn-glycero-3[Phospho-rac-(1-glycerol) (Ammonium Salt)), DMPG-NH4/NA (1,2- Dimyristoyl-sn-glycero-3[Phospho-rac-(1-glycerol) (Sodium/Ammonium Salt)), DMPS-NA (1,2-Dimyristoyl-sn-glycero-3-phosphoserine (Sodium Salt)), DOPA-NA (1,2-Dioleoyl-sn- glycero-3-phosphate (Sodium Salt)), DOPC (1,2-Dioleoyl-sn-glycero-3-phosphocholine), DOPE (1,2-Dioleoyl-sn-glycero-3-phosphoethanolamine), DOPG-NA (1,2-Dioleoyl-sn-glycero- 3[Phospho-rac-(1-glycerol) (Sodium Salt)), DOPS-NA (1,2-Dioleoyl-sn-glycero-3- phosphoserine (Sodium Salt)), DPPA-NA (1,2-Dipalmitoyl-sn-glycero-3-phosphate (Sodium Salt)), DPPE (1,2-Dipalmitoyl-sn-glycero-3-phosphoethanolamine), DPPG-NA (1,2- Dipalmitoyl-sn-glycero-3[Phospho-rac-(1-glycerol) (Sodium Salt)), DPPG-NH4 (1,2- Dipalmitoyl-sn-glycero-3[Phospho-rac-(1-glycerol) (Ammonium Salt)), DPPS-NA (1,2- Dipalmitoyl-sn-glycero-3-phosphoserine (Sodium Salt)), DSPA-NA (1,2-Distearoyl-sn-glycero- 3-phosphate (Sodium Salt)), DSPC (1,2-Distearoyl-sn-glycero-3-phosphocholine), DSPE (1,2- Distearoyl-sn-glycero-3-phosphoethanolamine), DSPG-NA (1,2-Distearoyl-sn-glycero- 3[Phospho-rac-(1-glycerol) (Sodium Salt)), DSPG-NH4 (1,2-Distearoyl-sn-glycero-3[Phospho- rac-(1-glycerol) (Ammonium Salt)), DSPS-NA (1,2-Distearoyl-sn-glycero-3-phosphoserine (Sodium Salt)), EPC (Egg-PC), HEPC (Hydrogenated Egg PC), HSPC (Hydrogenated Soy PC), LYSOPC MYRISTIC (1-Myristoyl-sn-glycero-3-phosphocholine), LYSOPC PALMITIC (1-Palmitoyl-sn-glycero-3-phosphocholine), LYSOPC STEARIC (1-Stearoyl-sn-glycero-3- phosphocholine), Milk Sphingomyelin (MPPC; 1-Myristoyl-2-palmitoyl-sn-glycero 3- phosphocholine), MSPC (1-Myristoyl-2-stearoyl-sn-glycero-3–phosphocholine), PMPC (1- Palmitoyl-2-myristoyl-sn-glycero-3–phosphocholine), POPC (1-Palmitoyl-2-oleoyl-sn-glycero- 3-phosphocholine), POPE (1-Palmitoyl-2-oleoyl-sn-glycero-3-phosphoethanolamine), POPG- NA (1-Palmitoyl-2-oleoyl-sn-glycero-3[Phospho-rac-(1-glycerol)] (Sodium Salt)), PSPC (1- Palmitoyl-2-stearoyl-sn-glycero-3–phosphocholine), SMPC (1-Stearoyl-2-myristoyl-sn-glycero- 3–phosphocholine), SOPC (1-Stearoyl-2-oleoyl-sn-glycero-3-phosphocholine), SPPC (1- Stearoyl-2-palmitoyl-sn-glycero-3-phosphocholine), or any combination thereof. [0119] PEGylated Lipid [0120] In some aspects, an LNP can further comprise at least about 0.25%, or at least about 0.5%, or at least about 0.75%, or at least about 1.0%, or at least about 2.5%, or at least about 5%, or at least about 7.5%, or at least about 10% PEGylated lipid by moles. [0121] As used herein, the term “PEGylated lipid” is used to refer to any lipid that is modified (e.g. covalently linked to) at least one polyethylene glycol molecule. In some aspects, a PEGylated lipid can comprise 1,2-dimyristoyl-rac-glycero-3-methoxypolyethylene glycol-2000, hereafter referred to as DMG-PEG2000 or PEG-DMG. [0122] In some aspects, the at least one PEGylated lipid is a mixture of two PEGylated lipids. [0123] Nucleic Acid Molecules [0124] In some aspects, a lipid nanoparticle of the present disclosure can further comprise at least one nucleic acid. In some aspects, a lipid nanoparticle can comprise a plurality of nucleic acid molecules. In some aspects, the at least one nucleic acid or the plurality of nucleic acid molecules can be formulated in a lipid nanoparticle. [0125] Accordingly, a lipid nanoparticle can comprise at least one nucleic acid, at least one compound of the present disclosure, at least one cationic lipid, at least one structural lipid, at least one phospholipid, and at least one PEGylated lipid. [0126] In some aspects, the at least one nucleic acid is a DNA molecule. In one aspect, the at least one DNA molecule is a DoggyBone® DNA molecule. In some aspects, the at least one DNA molecule is a DNA nanoplasmid. [0127] In some aspects, the at least one nucleic acid is an RNA molecule. In some aspects, the RNA molecule is an mRNA molecule. In some aspects, the mRNA molecule further comprises a 5’-CAP. In some aspects, all of the cytidine residues in an mRNA molecule can be 5- methylcytidine. [0128] In some aspects, the at least one RNA molecule is a guide RNA (gRNA) molecule. [0129] In some aspects, an at least one nucleic acid can comprise both mRNA molecules and guide RNA (gRNA) molecules. That is, the LNPs of the present disclosure can comprise both mRNA molecules and gRNA molecules. In some aspects wherein the LNPs comprise both mRNA molecules and gRNA molecules, the mRNA molecules comprise at least one nucleic acid sequence that encodes a fusion protein, wherein the fusion protein comprises: (i) an inactivated Cas9 (dCas9) protein or an inactivated nuclease domain thereof; and (ii) a Clo051 protein or a nuclease domain thereof, and wherein the gRNA molecules encode guide RNA sequence targeting one or more specific genomic loci. In some aspects, the fusion protein can be a Cas- CLOVER protein. In some aspects, the gRNA molecules can target the psk9 gene. [0130] In some aspects wherein the LNPs comprise both mRNA molecules and gRNA molecules, the ratio of mRNA:gRNA can be about 1:2, or about 1:3, or about1:4, or about 1:5, or about 1:6, or about 1:7, or about 1:8, or about 1:9, or about 1:10 or about 1:1, or about 2:1, or about 3:1, or about 4:1, or about 5:1, or about 6:1, or about 7:1, or about 8:1, or about 9:1 or about 10:1. [0131] In some aspects, an at least one nucleic acid can comprise at least one RNA molecule and at least one DNA molecule. That is, the LNPs of the present disclosure can comprise both RNA molecules and DNA molecules. [0132] In some aspects, the LNPs of the present disclosure can comprise both RNA molecules and DNA molecules, wherein the RNA molecules comprise at least one nucleic acid sequence that encodes a transposase and wherein the DNA molecules comprise at least one nucleic acid sequence that comprises a transposon. In some aspects, the transposase can be any of the transposases described herein. In some aspects, the transposon can be a transposon comprising at least one nucleic acid sequence encoding a FVIII polypeptide. In some aspects, the transposon can be a transposon comprising at least one nucleic acid sequence encoding a human propionyl- CoA carboxylase subunit alpha (PCCA) polypeptide. [0133] In some aspects wherein the LNPs of the present disclosure comprise both RNA (e.g. mRNA) and DNA, the ratio of RNA to DNA (RNA:DNA) in the LNPs can be about 1:2, or about 1:3, or about1:4, or about 1:1, or about 2:1, or about 3:1, or about 4:1, or about 5:1, or about 6:1, or about 7:1, or about 8:1, or about 9:1 or about 10:1. [0134] In some aspects, a lipid nanoparticle can comprise lipid and nucleic acid at a specified ratio (weight/weight). [0135] In some aspects, a lipid nanoparticle comprising at least one nucleic acid can comprise lipid and nucleic acid at a ratio of about 5:1 to about 15:1, or about 10:1 to about 20:1, or about 15:1 to about 25:1, or about 20:1 to about 30:1, or about 25:1 to about 35:1 or about 30:1 to about 40:1, or about 35:1 to about 45:1, or about 40:1 to about 50:1, or about 45:1 to about 55:1, or about 50:1 to about 60:1, or about 55:1 to about 65:1, or about 60:1 to about 70:1, or about 65:1 to about 75:1, or about 70:1 to about 80:1, or about 75:1 to about 85:1, or about 80:1 to about 90:1, or about 85:1 to about 95:1, or about 90:1 to about 100:1, or about 95:1 to about 105:1, or about 100:1 to about 110:1, or about 105:1 to about 115:1, or about 110:1 to about 120:1, or about 115:1 to about 125:1, or about 120:1 to about 130:1, or about 125:1 to about 135:1, or about 130:1 to about 140:1, or about 135:1 to about 145:1, or about 140:1 to about 150:1, lipid:nucleic acid, weight/weight. [0136] In some aspects, a lipid nanoparticle comprising at least one nucleic acid can comprise lipid and nucleic acid at a ratio of about 5:1, or about 10:1, or about 15:1, or about 20:1, or about 25:1, or about 30:1, or about 35:1, or about 40:1, or about 45:1, or about 50:1, or about 55:1, or about 60:1, or about 65:1, or about 70:1, or about 75:1, or about 80:1, or about 85:1, or about 90:1, or about 95:1, or about 100:1, or about 105:1, or about 110:1, or about 115:1, or about 120:1, or about 125:1, or about 130:1, or about 135:1, or about 140:1, or about 145:1, or about 150:1, lipid:nucleic acid, weight/weight. [0137] In some aspects, a lipid nanoparticle comprising at least one nucleic acid can comprise lipid and nucleic acid at a ratio of about 10:1, or about 25:1, or about 40:1, lipid:nucleic acid, weight/weight. [0138] In some aspects, a lipid nanoparticle comprising at least one nucleic acid can comprise lipid and nucleic acid at a ratio of about 20:1, or about 40:1, or about 60:1, or about 80:1, or about 120:1 lipid:nucleic acid, weight/weight. [0139] In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 30:1 to about 50:1 (w/w), or about 35:1 to about 45:1 (w/w). In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 40:1 (w/w). [0140] In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 40:1 to about 60:1 (w/w), or about 45:1 to about 55:1 (w/w). In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 50:1 (w/w). [0141] In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 50:1 to about 70:1 (w/w), or about 55:1 to about 65:1 (w/w). In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 60:1 (w/w). [0142] In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 70:1 to about 90:1 (w/w), or about 75:1 to about 85:1 (w/w). In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 80:1 (w/w). [0143] In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 90:1 to about 110:1 (w/w), or about 95:1 to about 105:1 (w/w). In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 100:1 (w/w). [0144] In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 110:1 to about 130:1 (w/w), or about 115:1 to about 125:1 (w/w). In some aspects, the ratio of lipid to nucleic acid in the nanoparticle can be about 120:1 (w/w). [0145] In some aspects, a lipid nanoparticle comprising at least one nucleic acid can comprise a compound of Formula (I) and nucleic acid at a specified ratio (weight/weight). [0146] In some aspects, a lipid nanoparticle comprising a compound of Formula (I) and at least one nucleic acid can comprise a compound of Formula (I) and nucleic acid at a ratio of about 0.1:1, or about 0.15:1, or about 0.2:1, or about 0.25:1, or about 0.3:1, or about 0.35:1, or about 0.4:1, or about 0.45:1, or about 0.5:1, or about 1:1, or about 1.5:1, or about 2:1, or about 2.5:1, or about 3:1, or about 3.5:1, or about 4:1, or about 4.5:1, or about 5:1, or about 5.5:1, or about 6:1, or about 6.5:1, or about 7:1, or about 7.5:1, or about 8:1, or about 8.5:1, or about 9:1, or about 9.5:1, or about 10:1, or about 10.5:1, or about 11:1, or about 11.5:1, or about 12:1, or about 12.5:1, or about 13:1, or about 13.5:1, or about 14:1, or about 14.5:1, or about 15:1, or about 15.5:1, or about 16:1, or about 16.5:1, or about 17:1, or about 17.5:1, or about 18:1, or about 18.5:1, or about 19:1, or about 19.5:1, or about 20:1 compound of Formula (I):nucleic acid. In some aspects, the at least one nucleic acid can comprise DNA. [0147] In some aspects, a lipid nanoparticle can comprise a compound of Formula (I) and lipid at a specified ratio (weight/weight). [0148] In some aspects, a lipid nanoparticle can comprise a compound of Formula (I) and lipid at a ratio of about 0.08:1, 0.1:1, or about 0.17:1, or about 0.2:1 or about 0.25:1, or about 0.3:1 compound of Formula (I):lipid, weight/weight. [0149] Further characteristics of the nucleic acid molecules of the present disclosure are provided herein. [0150] Targeting Ligand [0151] In some aspects, an LNP can further comprise at least one targeting ligand. [0152] Accordingly, a lipid nanoparticle can comprise at least one nucleic acid, at least one compound of the present disclosure, at least one cationic lipid, at least one structural lipid, at least one phospholipid, and at least one PEGylated lipid, and at least one targeting ligand. [0153] In some aspects, an LNP of the present disclosure can further comprise at least about 0.05%, or at least about 0.1%, or at least about 0.15%, or at least about 0.2%, or at least about 0.25%, or at least about 0.3%, or at least about 0.35%, or at least about 0.4%, or at least about 0.45%, or at least about 0.5%, or at least about 0.55%, or at least about 0.6%, or at least about 0.65%, or at least about 0.7%, or at least about 0.75%, or at least about 0.8%, or at least about 0.85%, or at least about 0.9%, or at least about 0.95%, or at least about 1.0%, or at least about 1.1%, or at least about 1.2%, or at least about 1.3%, or at least about 1.4%, or at least about 1.5%, or at least about 1.6%, or at least about 1.7%, or at least about 1.8%, or at least about 1.9%, or at least about 2.0% of at least one targeting ligand by moles. [0154] A targeting ligand may be any ligand that provides an enhanced affinity for a selected target, e.g., molecule, cell or cell type, e.g., a cellular or organ compartment, tissue, organ or region of the body, as, e.g., compared to a species absent such a ligand. [0155] In some aspects, a composition comprising a targeting lipid is well-tolerated and provides an adequate therapeutic index, such that patient treatment with an effective dose of the composition is associated with an improved toxicity and/or risk profile to the patient, compared to patient treatment with an effective dose of a composition that does not comprise a targeting ligand. [0156] In some aspects, a targeting ligand provides an enhanced affinity for the liver or liver cells, such as hepatocytes. A non-limiting example of a targeting ligand with enhanced affinity for the liver or liver cells is GalNac (n-acetyl-galactosamine). Thus, in some embodiments, the invention provides LNP compositions comprising a targeting ligand comprising GalNac. [0157] In some aspects, a targeting ligand comprising GalNac can be a pegylated GalNac molecule. In some aspects, a pegylated GalNac molecule can be Tri-GalNac-PEG2000-DSPE (referred to herein as “GalNac-PEG”), and which structure is shown below: . Thus, in some aspects, the present disclosure provides LNPs comprising GalNac-PEG. [0158] In some aspects, a targeting ligand can also include targeting groups, for example a group of tissue targeting agents. A non-limiting example of a targeting group can be multivalent GalNac molecule. Thus, in some embodiments, the invention provides LNP compositions comprising a targeting ligand comprising multivalent GalNac. A non-limiting example of a multivalent GalNac molecule is GalNac-PEG. [0159] In some aspects, a targeting ligand can comprise DSPE (1, 2-Distearoyl-sn-glycero-3- phosphoethanolamine). Thus, in some embodiments, the invention provides LNP compositions comprising a targeting ligand comprising DSPE. In some aspects, the DSPE can be pegylated. In some aspects, a targeting ligand comprising DSPE can be 1,2-distearoyl-sn-glycero-3- phosphoethanolamine-N-[methoxy(polyethylene glycol)-2000], also referred to herein as DSPE- PEG2000 or DSPE-PEG, and whose structure is shown below: . [0160] Pharmaceutical Compositions of the Present Disclosure [0161] In some aspects, the present disclosure provides a pharmaceutical composition comprising at least one lipid nanoparticle of the present disclosure. In some aspects, the present disclosure provides a pharmaceutical composition comprising at least one first nanoparticle of the present disclosure and at least one second nanoparticle of the present disclosure, wherein the at least one first nanoparticle comprises at least one nucleic acid molecule encoding at least one transposase, wherein the at least one second nanoparticle comprises at least one nucleic acid molecule encoding at least one transposon. In some aspects, the at least one nucleic acid molecule encoding at least one transposase can be an RNA molecule (e.g. mRNA molecule) and the at least one nucleic acid molecule encoding at least one transposon can be a DNA molecule (e.g. a DoggyBone® DNA molecule or a DNA nanoplasmid). [0162] In some aspects, the present disclosure provides a composition comprising at least one cell that has been contacted by at least one nanoparticle of the present disclosure. In some aspects, the present disclosure provides a composition comprising at least one cell that has been genetically modified using at least one nanoparticle of the present disclosure. In some aspects, the present disclosure provides a composition comprising at least one cell that has been genetically modified using any method of the present disclosure. [0163] In some aspects, the present disclosure provides a pharmaceutical composition comprising at least one cell that has been contacted by at least one nanoparticle of the present disclosure. In some aspects, the present disclosure provides a pharmaceutical composition comprising at least one cell that has been genetically modified using at least one nanoparticle of the present disclosure. In some aspects, the present disclosure provides a pharmaceutical composition comprising at least one cell that has been genetically modified using any method of the present disclosure. Methods of the Present Disclosure [0164] The present disclosure provides a method of delivering at least one nucleic acid to at least one cell comprising contacting the at least one cell with at least one composition of the present disclosure. The present disclosure provides a method of delivering at least one nucleic acid to at least one cell comprising contacting the at least one cell with at least one nanoparticle of the present disclosure. [0165] In all methods, compositions and kits of the present disclosure, at least one cell can be a liver cell. A liver cell can include, but is not limited to, a hepatocyte, a hepatic stellate cell, Kupffer cell or a liver sinusoidal endothelial cell. [0166] In some aspects of any methods of the present disclosure, a cell can be in vivo, ex vivo or in vitro. In some aspects, any of the methods of the present disclosure can be applied in vivo, ex vivo or in vitro. [0167] The present disclosure provides a method of genetically modifying at least one cell comprising contacting the at least one cell with at least one composition of the present disclosure. The present disclosure provides a method of genetically modifying at least one cell comprising contacting the at least one cell with at least one nanoparticle of the present disclosure. [0168] In some aspects, genetically modifying a cell can comprise delivering at least one exogenous nucleic acid to the cell such that the cell expresses at least one protein that the cell otherwise would not normally express, or such that the at least one cell expresses at least one protein at a level that is higher than the level that the cell would otherwise normally express the at least one protein, or such that the cell expresses at least one protein at a level that is lower than the level that the cell would otherwise normally express. In some aspects, genetically modifying a cell can comprise delivering at least one exogenous nucleic to the cell such that at least one exogenous nucleic acid is integrated into the genome of the at least one cell. [0169] In some aspects, the methods of the present disclosure can yield a plurality of cells, wherein at least about 1%, or at least about 2%, or at least about 3%, or at least about 4%, or at least about 5%, or at least 10%, or at least 15%, or at least 20%, or at least 25%, or at least 30%, or at least 35%, or at least 40%, or at least 45%, or at least 50%, or at least 55%, or at least 60%, or at least about 65%, or at least about 70%, or at least about 75%, or at least about 80%, or at least about 85%, or at least about 90%, or at least about 95%, or at least about 99% of the cell in the plurality express at least one protein that was encoded in at least one nucleic acid that was delivered to the plurality of cells via a nanoparticle of the present disclosure. [0170] The present disclosure provides a method of treating at least one disease in a subject, the method comprising administering to the subject at least one therapeutically effective amount of at least one composition of the present disclosure comprising at least one nucleic acid encoding a therapeutic protein. [0171] The present disclosure provides a method of treating at least one disease in a subject, the method comprising administering a therapeutically effective amount of at least one nanoparticle of the present disclosure comprising at least one nucleic acid encoding a therapeutic protein. [0172] The present disclosure provides a method of treating at least one disease in a subject, the method comprising administering a therapeutically effective amount of cells, wherein the cells have been contacted by at least one nanoparticle of the present disclosure comprising at least one nucleic acid encoding a therapeutic protein. The present disclosure provides a method of treating at least one disease in a subject, the method comprising administering a therapeutically effective amount of cells, wherein the cells have been genetically modified using the compositions and/or methods of the present disclosure. [0173] The disclosure provides methods for the treatment of a disease or disorder in a cell, tissue, organ, animal, or subject, comprising administering or contacting the cell, tissue, organ, animal, or subject with a therapeutic effective amount of a composition disclosed herein. In one aspect, the subject is a mammal. Preferably, the subject is human. The terms “subject” and “patient” are used interchangeably herein. [0174] The disclosure provides methods of treating at least one disease or disorder in a subject, comprising administering to the subject at least one therapeutically effective amount of at least one composition disclosed herein comprising at least one nucleic acid encoding a therapeutic protein. [0175] Without wishing to be bound by theory, it is hypothesized that the LNP compositions of the present disclosure target liver cells more effectively than other cells, thus reducing off-target effects associated with other delivery compositions. [0176] In some embodiments, the LNP compositions provided herein that comprise a targeting ligand result in less cytokine release than the same LNP composition not comprising the targeting ligand. Cytokine release may be measured using any suitable method known in the art or described herein. For example, cytokine levels may be determined in the blood of a subject receiving the LNP composition comprising the targeting ligand using enzyme-linked immunosorbent assays (ELISAs). The cytokine levels may then be compared to pre-treatment baseline levels. [0177] The disclosure provides a method for modulating or treating at least one malignant disease or disorder in a cell, tissue, organ, animal or subject. In some aspects, the at least one disease can be a malignant disease, including, but not limited to, cancer. In some aspects, the at least one disease can be Hemophilia A or Hemophilia B. In some aspects, the at least one disease can be a metabolic liver disorder (MLD). In some aspects, the at least one disease can be a urea cycle disorder (UCD). An MLD and/or UCD can include, but is not limited to, N- Acetylglutamate Synthetase (NAGS) Deficiency, Carbamoylphosphate Synthetase I Deficiency (CPSI Deficiency), Ornithine Transcarbamylase (OTC) Deficiency, Argininosuccinate Synthetase Deficiency (ASSD) (Citrullinemia I), Citrin Deficiency (Citrullinemia II), Argininosuccinate Lyase Deficiency (Argininosuccinic Aciduria), Arginase Deficiency (Hyperargininemia), Ornithine Translocase Deficiency (HHH Syndrome), methylmalonic acidemia (MMA) or any combination thereof. [0178] Methods of the disclosure may be used to treat a disease or disorder by use of a therapeutic transgene encoding for an exogenous nucleic acid sequence or exogenous amino acid sequence. In such methods, the transgene is delivered to a target cell to replace or repair a mutated gene. Diseases that may be treated with such methods are generally caused by a mutation in a gene that results in no protein being expressed or non-functional proteins being expressed. Examples of therapeutic transgenes that can be delivered using the compositions disclosed herein include: Beta-Thalassemia (HBB T87Q, BCL11A shRNA, IGF2BP1), Sickle Cell Disease (HBB T87Q, BCL11A shRNA, IGF2BP1), Hemophilia A (Factor VIII), Hemophilia B (Factor IX), X-linked Severe Combined Immunodeficiency (Interleukin 2 receptor gamma (IL2RG)), Hypophosphatasia (Tissue Non-specific Alkaline Phosphatase (TNAP)), Osteopetrosis (TCIRG1), Glycogen Storage Disease Type II (Pompe Disease) (Alpha Glucosidase (GAA)), Alpha-Galactosidase A Deficiency (Fabry disease) (Alpha-galactosidase A (GLA)), Mucopolysaccharidosis Type I (MPS I) (Alpha-L-iduronidase (IDUA)), Mucopolysaccharidosis Type II (MPS II) (Iduronate 2-sulfatase (IDS)), Mucopolysaccharidosis Type IIIA (MPS IIIA) (sulfoglycosamine-sulfohydrolase (SGSH)), Mucopolysaccharidosis Type IIIB (MPS IIIB) (N-alpha-acetylglucosaminidase (NAGLU)), Mucopolysaccharidosis Type IV A (MPS IVA) (Morquio) (N-acetylgalactosamine-6-sulfate sulfatase (GALNS)), Mucopolysaccharidosis Type IV B (MPS IVB) Beta-galactosidase (GLB1 (Beta-galactosidase (GLB1)), Cholesteryl Ester Storage Disease (CESD) (Lysosomal acid lipase (LIPA)), Cystinosis (Cystinosin lysosomal cystine transporter (CTNS)), X-linked chronic granulomatous disease (X- CGD) (CYBB), Wiskott-Aldrich Syndrome (WAS) (WAS), X-linked Adrenoleukodystrophy (X- ALD) (ABCD1), Metachromatic leukopdystrophy (MLD) (ARSA), Phenylketonuria (PAH), Methylmalonic academia (MMUT), Propionic Acidemia (PCCA, PCCB), Retinitis Pigmentosa (RPE65), Usher Syndrome (MYO7A), and Gaucher Disease (GBA). [0179] Methods of the present disclosure can optionally further comprise co-administration or combination therapy for treating such diseases or disorders, wherein the administering of any composition or pharmaceutical composition disclosed herein, further comprises administering, before concurrently, and/or after, at least one chemotherapeutic agent (e.g., an alkylating agent, a mitotic inhibitor, a radiopharmaceutical). Nucleic Acid Molecules [0180] In some aspects, a nucleic acid molecule can be a synthetic nucleic acid molecule. In some aspects, a nucleic acid molecule can be a non-naturally occurring nucleic acid molecule. In some aspects, a non-naturally occurring nucleic acid molecule can comprise at least one non- naturally occurring nucleotide. The at least one non-naturally occurring nucleotide can be any non-naturally occurring nucleotide known in the art. In some aspects, a nucleic acid molecule can be a modified nucleic acid molecule. In some aspects, a modified nucleic acid molecule can comprise at least one modified nucleotide. The at least one modified nucleotide can be any modified nucleic acid known in the art. [0181] In some aspects, an mRNA molecule can be capped using any method and/or capping moiety known in the art. An mRNA molecule can be capped with m7G(5’)ppp(5’)G moiety. A m7G(5’)ppp(5’)G moiety is also referred to herein as a “Cap0”. An mRNA molecule can be capped with a CleanCap® moiety. A CleanCap® moiety can comprise a m7G(5')ppp(5')(2'OMeA) (CleanCap® AG) moiety. A CleanCap® moiety can comprise a m7G(5')ppp(5')(2'OMeG) (CleanCap® GG) moiety. An mRNA molecule can be capped with an anti-reverse cap analog (ARCA®) moiety. An ARCA® moiety can comprise a m7(3’-O- methyl)G(5’)ppp(5’)G moiety. An mRNA molecule can be capped with a CleanCap® 3’OMe moiety (CleanCap®+ARCA®). [0182] In some aspects, an mRNA molecule can comprise at least one modified nucleic acid. [0183] The at least one modified nucleic acid can comprise 5-methoxyuridine (5moU). In some aspects, at least about 5%, or at least about 10%, or at least about 15%, or at least about 20%, or at least about 25%, or at least about 30%, or at least about 35%, or at least about 40%, or at least about 45%, or at least about 50%, or at least about 55%, or at least about 60%, or at least about 65%, or at least about 70%, or at least about 75%, or at least about 80%, or at least about 85%, at least about 90%, or at least about 95%, or at least about 99% of the uridine bases in an mRNA molecule are 5-methoxyuridine bases. In some aspects, all of the uridine bases in an mRNA molecule are 5-methoxyuridine bases. Without wishing to be bound by theory, 5-methoxyuridine can improve protein expression and reduce immunogenicity (see Li et al., Bioconjugate Chem. 2016, 27, 3, 849-853 and Vaidyanathan et al. Molecular Therapy – Nucleic Acids, 2018, 12, 530- 542). [0184] In some aspects, an mRNA molecule can comprise at least one modified nucleic acid. [0185] The at least one modified nucleic acid can comprise N1-methylpseudouridine (me1Ψ). In some aspects, at least about 5%, or at least about 10%, or at least about 15%, or at least about 20%, or at least about 25%, or at least about 30%, or at least about 35%, or at least about 40%, or at least about 45%, or at least about 50%, or at least about 55%, or at least about 60%, or at least about 65%, or at least about 70%, or at least about 75%, or at least about 80%, or at least about 85%, at least about 90%, or at least about 95%, or at least about 99% of the uridine bases in an mRNA N1-methylpseudouridine bases. In some aspects, all of the uridine bases in an mRNA molecule are N1-methylpseudouridine bases. Without wishing to be bound by theory, N1- methylpseudouridine can improve protein expression (see Li et al., Bioconjugate Chem.2016, 27, 3, 849-853). [0186] In some aspects, an mRNA molecule can comprise at least one modified nucleic acid. [0187] The at least one modified nucleic acid can comprise pseudouridine (Ψ). In some aspects, at least about 5%, or at least about 10%, or at least about 15%, or at least about 20%, or at least about 25%, or at least about 30%, or at least about 35%, or at least about 40%, or at least about 45%, or at least about 50%, or at least about 55%, or at least about 60%, or at least about 65%, or at least about 70%, or at least about 75%, or at least about 80%, or at least about 85%, at least about 90%, or at least about 95%, or at least about 99% of the uridine bases in an mRNA pseudouridine bases. In some aspects, all of the uridine bases in an mRNA molecule are pseudouridine bases. Without wishing to be bound by theory, pseudouridine can improve protein expression and reduce immunogenicity (see Li et al., Bioconjugate Chem.2016, 27, 3, 849-853 and Vaidyanathan et al. Molecular Therapy – Nucleic Acids, 2018, 12, 530-542). [0188] In some aspects, an mRNA molecule can comprise at least one modified nucleic acid. [0189] The at least one modified nucleic acid can comprise 5-methylcytidine (5-MeC). In some aspects, at least about 5%, or at least about 10%, or at least about 15%, or at least about 20%, or at least about 25%, or at least about 30%, or at least about 35%, or at least about 40%, or at least about 45%, or at least about 50%, or at least about 55%, or at least about 60%, or at least about 65%, or at least about 70%, or at least about 75%, or at least about 80%, or at least about 85%, at least about 90%, or at least about 95%, or at least about 99% of the cytidine bases in an mRNA 5-MeC bases. In some aspects, all of the cytidine bases in an mRNA molecule are 5-MeC bases. [0190] In some aspects, a nucleic acid molecule can comprise a DNA molecule. Thus, in some aspects, a lipid nanoparticle can comprise a DNA molecule. In some aspects, the DNA molecule can be a circular DNA molecule, such as, but not limited to, a DNA plasmid or DNA nanoplasmid. Thus, in some aspects, a lipid nanoparticle can comprise a circular DNA molecule. In some aspects, a lipid nanoparticle can comprise a Doggybone DNA molecule. In some aspects, a lipid nanoparticle can comprise a DNA plasmid. In some aspects, a lipid nanoparticle can comprise a DNA nanoplasmid. In some aspects, a DNA molecule can be a linearized DNA molecule, such as, but not limited to, a linearized DNA plasmid or a linearized DNA nanoplasmid. [0191] A DNA plasmid or DNA nanoplasmid can comprise can be at least about 0.25 kb, or at least about 0.5 kb, or at least about 0.75 kb, or at least about 1.0 kb, or at least about 1.25 kb, or at least about 1.5 kb, or at least about 1.75 kb, or at least about 2.0 kb, or at least about 2.25 kb, or at least about 2.5 kb, or at least about 2.75 kb, or at least about 3.0 kb, or at least about 3.25 kb, or at least about 3.5 kb, or at least about 3.75 kb, or at least about 4.0 kb, or at least about 4.25 kb, or at least about 4.5 kb, or at least about 4.75 kb, or at least about 5.0 kb, or at least about 5.25 kb, or at least about 5.5 kb, or at least about 5.75 kb, or at least about 6.0 kb, or at least about 6.25 kb, or at least about 6.5 kb, or at least about 6.75 kb, or at least about 7.0 kb, or at least about 7.25 kb, or at least about 7.5 kb, or at least about 7.75 kb, or at least about 8.0 kb, or at least about 8.25 kb, or at least about 8.5 kb, or at least about 8.75 kb, or at least about 9.0 kb, or at least about 9.25 kb, or at least about 9.5 kb, or at least about 9.75 kb, or at least about 10.0 kb, or at least about 10.25 kb, or at least about 10.5 kb, or at least about 10.75 kb, or at least about 11.0 kb, or at least about 11.25 kb, or at least about 11.5 kb, or at least about 11.75 kb, or at least about 12 kb, or at least about 12.25 kb, or at least about 12.5 kb, or at least about 12.75 kb, or at least about 13.0 kb, or at least about 13.25 kb, or at least about 13.5 kb, or at least about 13.75 kb, or at least about 14.0 kb, or at least about 14.25 kb, or at least about 14.5 kb, or at least about 14.75 kb or at least about 15.0 kb in length. [0192] In some aspects, a nucleic acid molecule formulated in a lipid nanoparticle of the present disclosure can comprise at least one transgene sequence. In some aspects, a transgene sequence can comprise a nucleotide sequence encoding at least one therapeutic protein. In some aspects, a transgene sequence can comprise a nucleotide sequence encoding at least one transposase. In some aspects, a transgene sequence can comprise a nucleotide sequence encoding at least one transposon. In some aspects, a transposon can comprise a nucleotide sequence encoding at least one therapeutic protein. In some aspects, a transposon can comprise a nucleotide sequence encoding at least one therapeutic protein and at least one protomer sequence, wherein the at least one therapeutic protein is operatively linked to the at least one promoter sequence. [0193] In some aspects, the lipid nanoparticles of the present disclosure can be produced using a microfluidic-mixing platform. In some aspects, the microfluidic-mixing platform can be a non- turbulent microfluidic mixing platform. [0194] In some aspects, a microfluidic-mixing platform can produce the lipid nanoparticles of the present invention by combining a miscible solvent phase comprising the lipid components of the nanoparticle and an aqueous phase comprising the lipid nanoparticle cargo (e.g. nucleic acid, DNA, mRNA, etc.) using a microfluidic device. In some aspects, the miscible solvent phase and the aqueous phase are mixed in the microfluidic device under laminar flow conditions that do not allow for immediate mixing of the two phases. As the two phases move under laminar flow in a microfluidic channel, microscopic features in the channel can allow for controlled, homogenous mixing to produce the lipid nanoparticles of the present disclosure. [0195] In some aspects, the microfluidic-mixing platform can include, but are not limited to the NanoAssemblr® Spark (Precision NanoSystems), the NanoAssemblr® Ignite™ (Precision NanoSystems), the NanoAssemblr® Benchtop (Precision NanoSystems), the NanoAssemblr® Blaze (Precision NanoSystems) or the NanoAssemblr® GMP System (Precision NanoSystems). [0196] In some aspects, the lipid nanoparticles of the present disclosure can be produced using a microfluidic-mixing platform, wherein the microfluidic mixing platform mixes at a rate of at least about 2.5 ml/min, or at least about 5 ml/min, or at least about 7.5 ml/min, or at least about 10 ml/min, or at least about 12.5 ml/min, or at least about 15 ml/min, or at least about 17.5 ml/min, or at least about 20 ml/min, or at least about 22.5 ml/min, or at least about 25 ml/min, or at least about 27.5 ml/min, or at least about 30 ml/min. [0197] In some aspects, the lipid nanoparticles of the present disclosure can be produced using a microfluidic-mixing platform, wherein the microfluidic mixing platform mixes a miscible solvent phase and an aqueous phase at a ratio of about 10:1, or about 9:1, or about 8:1, or about 7:1, or about 6:1, or about 5:1, or about 4:1, or about 3:1, or about 2:1, or about 1:1, or about 1:2, or about 1:3, or about 1:4, or about 1:5, or about 1:6, or about 1:7, or about 1:8, or about 1:9, or about 1:10, solvent:aqueous, v:v. piggyBac® ITR sequences [0198] In some aspects, a nucleic acid can comprise a piggyBac® ITR sequence. In some aspects, a nucleic acid can comprise a first piggyBac® ITR sequence and a second piggyBac® ITR sequence. [0199] In some aspects, a piggyBac® ITR sequence can comprise any piggyBac® ITR sequence known in the art. [0200] In some aspects of the methods of the present disclosure, a piggyBac® ITR sequence, such as a first piggyBac® ITR sequence and/or a second piggyBac® ITR sequence in an AAV piggyBac® transposon can comprise, consist essentially of, or consist of a Sleeping Beauty transposon ITR, a Helraiser transposon ITR, a Tol2 transposon ITR, a TcBuster transposon ITR or any combination thereof. Transposition systems [0201] In some aspects, a nucleic acid can comprise a transposon or a nanotransposon comprising: a first nucleic acid sequence comprising: (a) a first inverted terminal repeat (ITR) or a sequence encoding a first ITR, (b) a second ITR or a sequence encoding a second ITR, and (c) an intra-ITR sequence or a sequence encoding an intra-ITR, wherein the intra-ITR sequence comprises a transposon sequence or a sequence encoding a transposon. [0202] In some aspects, a nucleic acid can comprise a transposon or a nanotransposon comprising: a first nucleic acid sequence comprising: (a) a first inverted terminal repeat (ITR) or a sequence encoding a first ITR, (b) a second ITR or a sequence encoding a second ITR, and (c) an intra-ITR sequence or a sequence encoding an intra-ITR, wherein the intra-ITR sequence comprises a transposon sequence or a sequence encoding a transposon, and a second nucleic acid sequence comprising an inter-ITR sequence or a sequence encoding an inter-ITR, wherein the length of the inter-ITR sequence is equal to or less than 700 nucleotides. [0203] The transposon or nanotransposon of the present disclosure can be a piggyBac® (PB) transposon. In some aspects when the transposon is a PB transposon, the transposase is a piggyBac® (PB) transposase a piggyBac-like (PBL) transposase or a Super piggyBac® (SPB) transposase. Preferably, the sequence encoding the SPB transposase is an mRNA sequence. [0204] Non-limiting examples of PB transposons and PB, PBL and SPB transposases are described in detail in U.S. Patent No.6,218,182; U.S. Patent No.6,962,810; U.S. Patent No. 8,399,643 and PCT Publication No. WO 2010/099296. [0205] The PB, PBL and SPB transposases recognize transposon-specific inverted terminal repeat sequences (ITRs) on the ends of the transposon, and inserts the contents between the ITRs at the sequence 5’-TTAT-3’ within a chromosomal site (a TTAT target sequence) or at the sequence 5’-TTAA-3’ within a chromosomal site (a TTAA target sequence). The target sequence of the PB or PBL transposon can comprise or consist of 5’-CTAA-3’, 5’-TTAG-3’, 5’-ATAA-3’, 5’-TCAA-3’, 5’AGTT-3’, 5’-ATTA-3’, 5’-GTTA-3’, 5’-TTGA-3’, 5’-TTTA-3’, 5’-TTAC-3’, 5’-ACTA-3’, 5’-AGGG-3’, 5’-CTAG-3’, 5’-TGAA-3’, 5’-AGGT-3’, 5’-ATCA-3’, 5’-CTCC-3’, 5’-TAAA-3’, 5’-TCTC-3’, 5’TGAA-3’, 5’-AAAT-3’, 5’-AATC-3’, 5’-ACAA-3’, 5’-ACAT-3’, 5’-ACTC-3’, 5’-AGTG-3’, 5’-ATAG-3’, 5’-CAAA-3’, 5’-CACA-3’, 5’-CATA-3’, 5’-CCAG-3’, 5’-CCCA-3’, 5’-CGTA-3’, 5’-GTCC-3’, 5’-TAAG-3’, 5’-TCTA-3’, 5’-TGAG-3’, 5’-TGTT-3’, 5’-TTCA-3’5’-TTCT-3’ and 5’-TTTT-3’. The PB or PBL transposon system has no payload limit for the genes of interest that can be included between the ITRs. [0206] Exemplary amino acid sequences for one or more PB, PBL and SPB transposases are disclosed in U.S. Patent No.6,218,185; U.S. Patent No.6,962,810 and U.S. Patent No. 8,399,643, each of which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein. In some embodiments, the PB transposase comprises or consists of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 1. In some embodiments, the PB transposases comprises the amino acid sequence of SEQ ID NO: 1. [0207] The PB or PBL transposase can comprise or consist of an amino acid sequence having an amino acid substitution at two or more, at three or more or at each of positions 30, 165, 282, and/or 538 of the sequence of SEQ ID NO: 1. The transposase can be a SPB transposase that comprises or consists of the amino acid sequence of the sequence of SEQ ID NO: 1 wherein the amino acid substitution at position 30 can be a substitution of a valine (V) for an isoleucine (I), the amino acid substitution at position 165 can be a substitution of a serine (S) for a glycine (G), the amino acid substitution at position 282 can be a substitution of a valine (V) for a methionine (M), and the amino acid substitution at position 538 can be a substitution of a lysine (K) for an asparagine (N). In some embodiments, the SPB transposase comprises or consists of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 2. In some embodiments, the SPB transposase comprises the amino sequence set forth in SEQ ID NO: 2. [0208] In certain aspects wherein the transposase comprises the above-described mutations at positions 30, 165, 282 and/or 538, the PB, PBL and SPB transposases can further comprise an amino acid substitution at one or more of positions 3, 46, 82, 103, 119, 125, 177, 180, 185, 187, 200, 207, 209, 226, 235, 240, 241, 243, 258, 296, 298, 311, 315, 319, 327, 328, 340, 421, 436, 456, 470, 486, 503, 552, 570 and 591 of the sequence of SEQ ID NO: 1 or SEQ ID NO: 2 are described in more detail in PCT Publications No. WO 2019/173636 and No. WO 2020/051374, each of which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein. [0209] In some embodiments, the PB transposase comprises or consists of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 3. In some embodiments, the PB transposase comprises the amino acid sequence set forth in SEQ ID NO: 3. [0210] The PB or PBL transposase can comprise or consist of an amino acid sequence having an amino acid substitution at two or more, at three or more or at each of positions 29, 164, 281, and/or 537 of the sequence of SEQ ID NO: 3. The transposase can be a SPB transposase that comprises or consists of the amino acid sequence of the sequence of SEQ ID NO: 3 wherein the amino acid substitution at position 29 can be a substitution of a valine (V) for an isoleucine (I), the amino acid substitution at position 164 can be a substitution of a serine (S) for a glycine (G), the amino acid substitution at position 281 can be a substitution of a valine (V) for a methionine (M), and the amino acid substitution at position 537 can be a substitution of a lysine (K) for an asparagine (N). In some embodiments, the SPB transposase comprises or consists of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 4. In some embodiments, the SPB transposase comprises the amino acid sequence set forth in SEQ ID NO: 4. [0211] In certain aspects wherein the transposase comprises the above-described mutations at positions 29, 164, 281, and/or 537, the PB, PBL and SPB transposases can further comprise an amino acid substitution at one or more of positions 2, 45, 81, 102, 118, 124, 176, 179, 184, 186, 199, 206, 208, 225, 234, 239, 240, 242, 257, 295, 297, 310, 314, 318, 326, 327, 339, 420, 435, 455, 469, 485, 502, 551, 569 and 590 of the sequence of SEQ ID NO: 3 or SEQ ID NO: 4 are described in more detail in PCT Publication No. WO 2019/173636 and No. WO 2020/051374 , each of which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein. [0212] The PB, PBL or SPB transposases can be isolated or derived from an insect, vertebrate, crustacean or urochordate as described in more detail in PCT Publication No. WO 2019/173636 and PCT/US2019/049816. In preferred aspects, the PB, PBL or SPB transposases is isolated or derived from the insect Trichoplusia ni (GenBank Accession No. AAA87375) or Bombyx mori (GenBank Accession No. BAD11135). [0213] A hyperactive PB or PBL transposase is a transposase that is more active than the endogenous transposase from which it is derived. In a preferred aspect, a hyperactive PB or PBL transposase is isolated or derived from Bombyx mori or Xenopus tropicalis. Examples of hyperactive PB or PBL transposases are disclosed in U.S. Patent No.6,218,185; U.S. Patent No. 6,962,810, U.S. Patent No.8,399,643 and WO 2019/173636, each of which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein. A list of hyperactive amino acid substitutions is disclosed in U.S. Patent No.10,041,077, which is incorporated herein by reference in its entirety for examples of amino acid substitutions that may be introduced into the transposases described herein. A transposon or nanotransposon of the present disclosure can be a Sleeping Beauty transposon. In some aspects, when the transposon is a Sleeping Beauty transposon, the transposase is a Sleeping Beauty transposase (for example as disclosed in U.S. Patent No.9,228,180, which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein) or a hyperactive Sleeping Beauty (SB100X) transposase. [0214] In some aspects, the PB or PBL transposase is integration deficient. An integration deficient PB or PBL transposase is a transposase that can excise its corresponding transposon, but that integrates the excised transposon at a lower frequency than a corresponding wild type transposase. Examples of integration deficient PB or PBL transposases are disclosed in U.S. Patent No.6,218,185; U.S. Patent No.6,962,810, U.S. Patent No.8,399,643 and WO 2019/173636, each of which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein. A list of integration deficient amino acid substitutions is disclosed in US patent No. 10,041,077, which is incorporated herein by reference in its entirety for examples of amino acid substitutions that may be introduced into transposases described herein. [0215] In some aspects, the PB or PBL transposase is fused to a nuclear localization signal. Examples of PB or PBL transposases fused to a nuclear localization signal are disclosed in U.S. Patent No.6,218,185; U.S. Patent No.6,962,810, U.S. Patent No.8,399,643 and WO 2019/173636, each of which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein. [0216] A transposon or nanotransposon of the present disclosure can be a Sleeping Beauty transposon. In some aspects, when the transposon is a Sleeping Beauty transposon, the transposase is a Sleeping Beauty transposase (for example as disclosed in U.S. Patent No. 9,228,180, which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein) or a hyperactive Sleeping Beauty (SB100X) transposase. [0217] A transposon or nanotransposon of the present disclosure can be a Helraiser transposon. An exemplary Helraiser transposon includes Helibat1. In some aspects, when the transposon is a Helraiser transposon, the transposase is a Helitron transposase (for example, as disclosed in WO 2019/173636, which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein). [0218] A transposon or nanotransposon of the present disclosure can be a Tol2 transposon. In some aspects, when the transposon is a Tol2 transposon, the transposase is a Tol2 transposase (for example, as disclosed in WO 2019/173636). [0219] A transposon or nanotransposon of the present disclosure can be a TcBuster transposon. In some aspects, when the transposon is a TcBuster transposon, the transposase is a TcBuster transposase or a hyperactive TcBuster transposase (for example, as disclosed in WO 2019/173636, which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein). The TcBuster transposase can comprise or consist of a naturally occurring amino acid sequence or a non-naturally occurring amino acid sequence. The polynucleotide encoding a TcBuster transposase can comprise or consist of a naturally occurring nucleic acid sequence or a non-naturally occurring nucleic acid sequence. [0220] In some aspects, a mutant TcBuster transposase comprises one or more sequence variations when compared to a wild type TcBuster transposase as described in more detail in PCT Publications No. WO 2019/173636 and No. WO 2020/051374, each of which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein. [0221] The cell delivery compositions (e.g., transposons) disclosed herein can comprise a nucleic acid molecule encoding a therapeutic protein or therapeutic agent. Examples of therapeutic proteins include those disclosed in PCT Publications No. WO 2019/173636 and No. WO 2020/051374, each of which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein. [0222] In some aspects, a therapeutic protein can comprise a FVIII polypeptide. An exemplary nanoplasmid encoding an FVIII polypeptide is provided in SEQ ID NO: 9. Accordingly, a nucleic acid formulated in a nanoparticle of the present disclosure can comprise, consist essentially of, or consist of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 9. [0223] In some aspects, a therapeutic protein can comprise a propionyl-CoA carboxylase subunit alpha (PCCA) polypeptide. An exemplary transposon encoding a PCCA polypeptide is provided in SEQ ID NO: 10. Accordingly, a nucleic acid formulated in a nanoparticle of the present disclosure can comprise, consist essentially of, or consist of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 10. Gene editing systems [0224] The present disclosure provides a gene editing composition and/or a cell comprising the gene editing composition. The gene editing composition can comprise a nanoparticle comprising a nucleic acid, wherein the nucleic acid comprises a sequence encoding a DNA binding domain and a sequence encoding a nuclease protein or a nuclease domain thereof. The sequence encoding a nuclease protein or the sequence encoding a nuclease domain thereof can comprise a DNA sequence, an RNA sequence, or a combination thereof. The nuclease or the nuclease domain thereof can comprise one or more of a CRISPR/Cas protein, a Transcription Activator- Like Effector Nuclease (TALEN), a Zinc Finger Nuclease (ZFN), and an endonuclease. [0225] The nuclease or the nuclease domain thereof can comprise a nuclease-inactivated Cas (dCas) protein and an endonuclease. The endonuclease can comprise a Clo051 nuclease or a nuclease domain thereof. The gene editing composition can comprise a fusion protein. The fusion protein can comprise a nuclease-inactivated Cas9 (dCas9) protein and a Clo051 nuclease or a Clo051 nuclease domain. In some aspects, the fusion protein can further comprise at least one nuclear localization signal (NLS). In some aspects, the fusion protein can further comprise at least two NLSs. The gene editing composition can further comprise a guide sequence. The guide sequence can comprise an RNA sequence. [0226] A transgene can comprise a nucleic sequence encoding a small, Cas9 (Cas9) operatively- linked to an effector. The disclosure provides a fusion protein comprising, consisting essentially of or consisting of a DNA localization component and an effector molecule, wherein the effector comprises a small, Cas9 (Cas9). A small Cas9 construct of the disclosure can comprise an effector comprising a type IIS endonuclease. [0227] A transgene can comprise a nucleic sequence encoding an inactivated, small, Cas9 (dSaCas9) operatively-linked to an effector. A transgene can comprise a nucleic sequence encoding a fusion protein comprising, consisting essentially of or consisting of a DNA localization component and an effector molecule, wherein the effector comprises a small, inactivated Cas9 (dSaCas9). A small, inactivated Cas9 (dSaCas9) construct of the disclosure can comprise an effector comprising a type IIS endonuclease. [0228] A transgene can comprise a nucleic sequence encoding an inactivated Cas9 (dCas9) operatively-linked to an effector. A transgene can comprise a nucleic sequence encoding a fusion protein comprising, consisting essentially of or consisting of a DNA localization component and an effector molecule, wherein the effector comprises an inactivated Cas9 (dCas9). An inactivated Cas9 (dCas9) construct of the disclosure can comprise an effector comprising a type IIS endonuclease. [0229] The dCas9 can be isolated or derived from Streptoccocus pyogenes. The dCas9 can comprise a dCas9 with substitutions at amino acid positions 10 and 840, which inactivate the catalytic site. In some aspects, these substitutions are D10A and H840A. [0230] A cell comprising the gene editing composition can express the gene editing composition stably or transiently. Preferably, the gene editing composition is expressed transiently. The guide RNA can comprise a sequence complementary to a target sequence within a genomic DNA sequence. The target sequence within a genomic DNA sequence can be a target sequence within a safe harbor site of a genomic DNA sequence. [0231] Gene editing compositions, including Cas-CLOVER, and methods of using these compositions for gene editing are described in detail in U.S. Patent Publication Nos. 2017/0107541, 2017/0114149, 2018/0187185 and U.S. Patent No.10,415,024, each of which is incorporated herein by reference in its entirety for examples of gene editing systems that may be used in conjunction with the compositions and methods described herein. In some aspects, a Cas-CLOVER protein can comprise, consist essentially of, or consist of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 11. In some embodiments, the Cas-CLOVER protein comprises the amino acid sequence set forth in SEQ ID NO: 11. [0232] Accordingly, the present disclosure provides any of the lipid nanoparticle compositions described herein, wherein the lipid nanoparticle comprises at least one genomic editing composition, wherein the at least one genomic editing composition comprises: a) a nucleic acid molecule comprising a nucleic acid sequence encoding a fusion protein, wherein the fusion protein comprises (i) an inactivated Cas9 (dCas9) protein or an inactivated nuclease domain thereof, (ii) a Clo051 protein or a nuclease domain thereof; and b) at least one gRNA molecule. In some aspects, the fusion protein can further comprise at least one NLS. In some aspects, the at least one genomic editing composition can comprise at least two species of gRNA molecules. [0233] Exemplary nucleic acid sequence encoding a fusion protein are presented in SEQ ID NO: 5. Accordingly, a nucleic acid molecule formulated in a lipid nanoparticle of the present disclosure can comprise, consist essentially of, or consist of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 5. [0234] Exemplary gRNA sequences are presented in SEQ ID NOs: 6 and 7. Accordingly, gRNA molecules formulated in a lipid nanoparticle of the present disclosure can comprise, consist essentially of, or consist of an amino acid sequence at least 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98%, 99% or 100% (or any percentage in between) identical to SEQ ID NO: 6 or SEQ ID NO: 7. Formulations, Dosages and Modes of Administration [0235] The present disclosure provides formulations, dosages and methods for administration of the compositions described herein. [0236] The disclosed compositions and pharmaceutical compositions can further comprise at least one of any suitable auxiliary, such as, but not limited to, diluent, binder, stabilizer, buffers, salts, lipophilic solvents, preservative, adjuvant or the like. Pharmaceutically acceptable auxiliaries are preferred. Non-limiting examples of, and methods of preparing such sterile solutions are well known in the art, such as, but limited to, Gennaro, Ed., Remington's Pharmaceutical Sciences, 18th Edition, Mack Publishing Co. (Easton, Pa.) 1990 and in the “Physician's Desk Reference”, 52nd ed., Medical Economics (Montvale, N.J.) 1998. Pharmaceutically acceptable carriers can be routinely selected that are suitable for the mode of administration, solubility and/or stability of the composition as well known in the art or as described herein. [0237] For example, the disclosed LNP compositions of the present invention can further comprise a diluent. In some compositions, the diluent can be phosphate buffered saline (“PBS”). [0238] Non-limiting examples of pharmaceutical excipients and additives suitable for use include proteins, peptides, amino acids, lipids, and carbohydrates (e.g., sugars, including monosaccharides, di-, tri-, tetra-, and oligosaccharides; derivatized sugars, such as alditols, aldonic acids, esterified sugars and the like; and polysaccharides or sugar polymers), which can be present singly or in combination, comprising alone or in combination 1-99.99% by weight or volume. Non-limiting examples of protein excipients include serum albumin, such as human serum albumin (HSA), recombinant human albumin (rHA), gelatin, casein, and the like. Representative amino acid/protein components, which can also function in a buffering capacity, include alanine, glycine, arginine, betaine, histidine, glutamic acid, aspartic acid, cysteine, lysine, leucine, isoleucine, valine, methionine, phenylalanine, aspartame, and the like. One preferred amino acid is glycine. [0239] The compositions can also include a buffer or a pH-adjusting agent; typically, the buffer is a salt prepared from an organic acid or base. Representative buffers include organic acid salts, such as salts of citric acid, ascorbic acid, gluconic acid, carbonic acid, tartaric acid, succinic acid, acetic acid, or phthalic acid; Tris, tromethamine hydrochloride, or phosphate buffers. Preferred buffers are organic acid salts, such as citrate. In some aspects, the buffer can include sucrose. [0240] Many known and developed modes can be used for administering therapeutically effective amounts of the compositions or pharmaceutical compositions disclosed herein. Non- limiting examples of modes of administration include bolus, buccal, infusion, intrarticular, intrabronchial, intraabdominal, intracapsular, intracartilaginous, intracavitary, intracelial, intracerebellar, intracerebroventricular, intracolic, intracervical, intragastric, intrahepatic, intralesional, intramuscular, intramyocardial, intranasal, intraocular, intraosseous, intraosteal, intrapelvic, intrapericardiac, intraperitoneal, intrapleural, intraprostatic, intrapulmonary, intrarectal, intrarenal, intraretinal, intraspinal, intrasynovial, intrathoracic, intrauterine, intratumoral, intravenous, intravesical, oral, parenteral, rectal, sublingual, subcutaneous, transdermal or vaginal means. [0241] A composition of the disclosure can be prepared for use for parenteral (subcutaneous, intramuscular or intravenous) or any other administration particularly in the form of liquid solutions or suspensions; for use in vaginal or rectal administration particularly in semisolid forms, such as, but not limited to, creams and suppositories; for buccal, or sublingual administration, such as, but not limited to, in the form of tablets or capsules; or intranasally, such as, but not limited to, the form of powders, nasal drops or aerosols or certain agents; or transdermally, such as not limited to a gel, ointment, lotion, suspension or patch delivery system with chemical enhancers such as dimethyl sulfoxide to either modify the skin structure or to increase the drug concentration in the transdermal patch (Junginger, et al. In “Drug Permeation Enhancement;” Hsieh, D. S., Eds., pp.59-90 (Marcel Dekker, Inc. New York 1994,), or applications of electric fields to create transient transport pathways, such as electroporation, or to increase the mobility of charged drugs through the skin, such as iontophoresis, or application of ultrasound, such as sonophoresis (U.S. Pat. Nos.4,309,989 and 4,767,402) (the above publications and patents being entirely incorporated herein by reference). [0242] For parenteral administration, any composition disclosed herein can be formulated as a solution, suspension, emulsion, particle, powder, or lyophilized powder in association, or separately provided, with a pharmaceutically acceptable parenteral vehicle. Formulations for parenteral administration can contain as common excipients sterile water or saline, polyalkylene glycols, such as polyethylene glycol, oils of vegetable origin, hydrogenated naphthalenes and the like. Aqueous or oily suspensions for injection can be prepared by using an appropriate emulsifier or humidifier and a suspending agent, according to known methods. Agents for injection can be a non-toxic, non-orally administrable diluting agent, such as aqueous solution, a sterile injectable solution or suspension in a solvent. As the usable vehicle or solvent, water, Ringer's solution, isotonic saline, etc. are allowed; as an ordinary solvent or suspending solvent, sterile involatile oil can be used. For these purposes, any kind of involatile oil and fatty acid can be used, including natural or synthetic or semisynthetic fatty oils or fatty acids; natural or synthetic or semisynthtetic mono- or di- or tri-glycerides. Parental administration is known in the art and includes, but is not limited to, conventional means of injections, a gas pressured needle- less injection device as described in U.S. Pat. No.5,851,198, and a laser perforator device as described in U.S. Pat. No.5,839,446, each of which is incorporated herein by reference in its entirety for examples of injection devices that may be used in conjunction with the compositions and methods described herein. [0243] For pulmonary administration, preferably, a composition or pharmaceutical composition described herein is delivered in a particle size effective for reaching the lower airways of the lung or sinuses. The composition or pharmaceutical composition can be delivered by any of a variety of inhalation or nasal devices known in the art for administration of a therapeutic agent by inhalation. These devices capable of depositing aerosolized formulations in the sinus cavity or alveoli of a patient include metered dose inhalers, nebulizers (e.g., jet nebulizer, ultrasonic nebulizer), dry powder generators, sprayers, and the like. All such devices can use formulations suitable for the administration for the dispensing of a composition or pharmaceutical composition described herein in an aerosol. Such aerosols can be comprised of either solutions (both aqueous and non-aqueous) or solid particles. In a metered dose inhaler (MDI), a propellant, a composition or pharmaceutical composition described herein, and any excipients or other additives are contained in a canister as a mixture including a liquefied compressed gas. Actuation of the metering valve releases the mixture as an aerosol. A more detailed description of pulmonary administration, formulations and related devices is disclosed in PCT Publication No. WO 2019/049816, which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein. [0244] For absorption through mucosal surfaces, compositions include an emulsion comprising a plurality of submicron particles, a mucoadhesive macromolecule, a bioactive peptide, and an aqueous continuous phase, which promotes absorption through mucosal surfaces by achieving mucoadhesion of the emulsion particles (see, e.g., U.S. Pat. No.5,514,670, which is incorporated herein by reference in its entirety for examples). Mucous surfaces suitable for application of the emulsions of the disclosure can include corneal, conjunctival, buccal, sublingual, nasal, vaginal, pulmonary, stomachic, intestinal, and rectal routes of administration. Formulations for vaginal or rectal administration, e.g., suppositories, can contain as excipients, for example, polyalkyleneglycols, vaseline, cocoa butter, and the like. Formulations for intranasal administration can be solid and contain as excipients, for example, lactose or can be aqueous or oily solutions of nasal drops. For buccal administration, excipients include sugars, calcium stearate, magnesium stearate, pregelinatined starch, and the like (see, e.g., U.S. Pat. No. 5,849,695, which is incorporated herein by reference in its entirety for examples). A more detailed description of mucosal administration and formulations is disclosed in PCT Publication No. WO 2019/049816, each of which is incorporated herein by reference in its entirety for examples of formulations that may be used in conjunction with the compositions and methods described herein. [0245] For transdermal administration, a composition or pharmaceutical composition disclosed herein is encapsulated in a delivery device, such as a liposome or polymeric nanoparticles, microparticle, microcapsule, or microspheres (referred to collectively as microparticles unless otherwise stated). A number of suitable devices are known, including microparticles made of synthetic polymers, such as polyhydroxy acids, such as polylactic acid, polyglycolic acid and copolymers thereof, polyorthoesters, polyanhydrides, and polyphosphazenes, and natural polymers, such as collagen, polyamino acids, albumin and other proteins, alginate and other polysaccharides, and combinations thereof (see, e.g., U.S. Pat. No.5,814,599, each of which is incorporated herein by reference in its entirety for examples). A more detailed description of transdermal administration, formulations and suitable devices is disclosed in PCT Publication No. WO 2019/049816, which is incorporated herein by reference in its entirety for examples of formulations and devices that may be used in conjunction with the compositions and methods described herein. [0246] It can be desirable to deliver the disclosed compounds to the subject over prolonged periods of time, for example, for periods of one week to one year from a single administration. Various slow release, depot or implant dosage forms can be utilized. [0247] Suitable dosages are well known in the art. See, e.g., Wells et al., eds., Pharmacotherapy Handbook, 2nd Edition, Appleton and Lange, Stamford, Conn. (2000); PDR Pharmacopoeia, Tarascon Pocket Pharmacopoeia 2000, Deluxe Edition, Tarascon Publishing, Loma Linda, Calif. (2000); Nursing 2001 Handbook of Drugs, 21st edition, Springhouse Corp., Springhouse, Pa., 2001; Health Professional's Drug Guide 2001, ed., Shannon, Wilson, Stang, Prentice-Hall, Inc, Upper Saddle River, N.J. Preferred doses can optionally include about 0.1-99 and/or 100-500 mg/kg/administration, or any range, value or fraction thereof, or to achieve a serum concentration of about 0.1-5000 μg/ml serum concentration per single or multiple administration, or any range, value or fraction thereof. A preferred dosage range for the compositions or pharmaceutical compositions disclosed herein is from about 1 mg/kg, up to about 3, about 6 or about 12 mg/kg of body weight of the subject. [0248] Alternatively, the dosage administered can vary depending upon known factors, such as the pharmacodynamic characteristics of the particular agent, and its mode and route of administration; age, health, and weight of the recipient; nature and extent of symptoms, kind of concurrent treatment, frequency of treatment, and the effect desired. [0249] As a non-limiting example, treatment of humans or animals can be provided as a one- time or periodic dosage of the compositions or pharmaceutical compositions disclosed herein about 0.1 to 100 mg/kg or any range, value or fraction thereof per day, on at least one of day 1- 40, or, alternatively or additionally, at least one of week 1-52, or, alternatively or additionally, at least one of 1-20 years, or any combination thereof, using single, infusion or repeated doses. [0250] In aspects where the compositions to be administered to a subject in need thereof are modified cells as disclosed herein, the cells can be administered between about 1x103 and 1x1015 cells; 1x103 and 1x1015 cells, about 1x104 and 1x1012 cells; about 1x105 and 1x1010 cells; about 1x106 and 1x109 cells; about 1x106 and 1x108 cells; about 1x106 and 1x107 cells; or about 1x106 and 25x106 cells. In an aspect the cells are administered between about 5x106 and 25x106 cells. [0251] A more detailed description of pharmaceutically acceptable excipients, formulations, dosages and methods of administration of the disclosed compositions and pharmaceutical compositions is disclosed in PCT Publication No. WO 2019/04981, which is incorporated herein by reference in its entirety for examples of transposases that may be used in conjunction with the compositions and methods described herein. [0252] The disclosure provides the use of a disclosed composition or pharmaceutical composition for the treatment of a disease or disorder in a cell, tissue, organ, animal, or subject, as known in the art or as described herein, using the disclosed compositions and pharmaceutical compositions, e.g., administering or contacting the cell, tissue, organ, animal, or subject with a therapeutic effective amount of the composition or pharmaceutical composition. In an aspect, the subject is a mammal. Preferably, the subject is human. The terms “subject” and “patient” are used interchangeably herein. [0253] The disclosure provides a method for modulating or treating at least one malignant disease or disorder in a cell, tissue, organ, animal or subject. Non-limiting examples of a malignant disease or disorder include cancer and liver diseases or disorders. [0254] Any method can comprise administering an effective amount of any composition or pharmaceutical composition disclosed herein to a cell, tissue, organ, animal or subject in need of such modulation, treatment or therapy. Such a method can optionally further comprise co- administration or combination therapy for treating such diseases or disorders, wherein the administering of any composition or pharmaceutical composition disclosed herein, further comprises administering, before concurrently, and/or after, at least one chemotherapeutic agent (e.g., an alkylating agent, an a mitotic inhibitor, a radiopharmaceutical). [0255] In some aspects, the subject does not develop graft vs. host (GvH) and/or host vs. graft (HvG) following administration. In an aspect, the administration is systemic. Systemic administration can be any means known in the art and described in detail herein. Preferably, systemic administration is by an intravenous injection or an intravenous infusion. In an aspect, the administration is local. Local administration can be any means known in the art and described in detail herein. Preferably, local administration is by intra-tumoral injection or infusion, intraspinal injection or infusion, intracerebroventricular injection or infusion, intraocular injection or infusion, or intraosseous injection or infusion. [0256] In some aspects, the therapeutically effective dose is a single dose. In some aspects, the single dose is one of at least 2, 5, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100 or any number of doses in between that are manufactured simultaneously. In some aspects, where the composition is autologous cells or allogeneic cells, the dose is an amount sufficient for the cells to engraft and/or persist for a sufficient time to treat the disease or disorder. [0257] In some aspects of the methods of treatment described herein, the treatment can be modified or terminated. Specifically, in aspects where the composition used for treatment comprises an inducible proapoptotic polypeptide, apoptosis may be selectively induced in the cell by contacting the cell with an induction agent. A treatment may be modified or terminated in response to, for example, a sign of recovery or a sign of decreasing disease severity/progression, a sign of disease remission/cessation, and/or the occurrence of an adverse event. In some aspects, the method comprises the step of administering an inhibitor of the induction agent to inhibit modification of the cell therapy, thereby restoring the function and/or efficacy of the cell therapy (for example, when a sign or symptom of the disease reappear or increase in severity and/or an adverse event is resolved). Construction of Nucleic Acids [0258] The isolated nucleic acids of the disclosure can be made using (a) recombinant methods, (b) synthetic techniques, (c) purification techniques, and/or (d) combinations thereof, as well- known in the art. [0259] The nucleic acids can conveniently comprise sequences in addition to a polynucleotide of the present disclosure. For example, a multi-cloning site comprising one or more endonuclease restriction sites can be inserted into the nucleic acid to aid in isolation of the polynucleotide. Also, translatable sequences can be inserted to aid in the isolation of the translated polynucleotide of the disclosure. For example, a hexa-histidine marker sequence provides a convenient means to purify the proteins of the disclosure. The nucleic acid of the disclosure, excluding the coding sequence, is optionally a vector, adapter, or linker for cloning and/or expression of a polynucleotide of the disclosure. [0260] Additional sequences can be added to such cloning and/or expression sequences to optimize their function in cloning and/or expression, to aid in isolation of the polynucleotide, or to improve the introduction of the polynucleotide into a cell. Use of cloning vectors, expression vectors, adapters, and linkers is well known in the art. (See, e.g., Ausubel, supra; or Sambrook, supra). Recombinant Methods for Constructing Nucleic Acids [0261] The isolated nucleic acid compositions of this disclosure, such as RNA, cDNA, genomic DNA, or any combination thereof, can be obtained from biological sources using any number of cloning methodologies known to those of skill in the art. In some aspects, oligonucleotide probes that selectively hybridize, under stringent conditions, to the polynucleotides of the present disclosure are used to identify the desired sequence in a cDNA or genomic DNA library. The isolation of RNA, and construction of cDNA and genomic libraries are well known to those of ordinary skill in the art. (See, e.g., Ausubel, supra; or Sambrook, supra). Nucleic Acid Screening and Isolation Methods [0262] A cDNA or genomic library can be screened using a probe based upon the sequence of a polynucleotide of the disclosure. Probes can be used to hybridize with genomic DNA or cDNA sequences to isolate homologous genes in the same or different organisms. Those of skill in the art will appreciate that various degrees of stringency of hybridization can be employed in the assay; and either the hybridization or the wash medium can be stringent. As the conditions for hybridization become more stringent, there must be a greater degree of complementarity between the probe and the target for duplex formation to occur. The degree of stringency can be controlled by one or more of temperature, ionic strength, pH and the presence of a partially denaturing solvent, such as formamide. For example, the stringency of hybridization is conveniently varied by changing the polarity of the reactant solution through, for example, manipulation of the concentration of formamide within the range of 0% to 50%. The degree of complementarity (sequence identity) required for detectable binding will vary in accordance with the stringency of the hybridization medium and/or wash medium. The degree of complementarity will optimally be 100%, or 70-100%, or any range or value therein. However, it should be understood that minor sequence variations in the probes and primers can be compensated for by reducing the stringency of the hybridization and/or wash medium. [0263] Methods of amplification of RNA or DNA are well known in the art and can be used according to the disclosure without undue experimentation, based on the teaching and guidance presented herein. [0264] Known methods of DNA or RNA amplification include, but are not limited to, polymerase chain reaction (PCR) and related amplification processes (see, e.g., U.S. Pat. Nos. 4,683,195, 4,683,202, 4,800,159, 4,965,188, to Mullis, et al.; 4,795,699 and 4,921,794 to Tabor, et al; 5,142,033 to Innis; 5,122,464 to Wilson, et al.; 5,091,310 to Innis; 5,066,584 to Gyllensten, et al; 4,889,818 to Gelfand, et al; 4,994,370 to Silver, et al; 4,766,067 to Biswas; 4,656,134 to Ringold) and RNA mediated amplification that uses anti-sense RNA to the target sequence as a template for double-stranded DNA synthesis (U.S. Pat. No.5,130,238 to Malek, et al, with the tradename NASBA), the entire contents of which references are incorporated herein by reference. (See, e.g., Ausubel, supra; or Sambrook, supra.) [0265] For instance, polymerase chain reaction (PCR) technology can be used to amplify the sequences of polynucleotides of the disclosure and related genes directly from genomic DNA or cDNA libraries. PCR and other in vitro amplification methods can also be useful, for example, to clone nucleic acid sequences that code for proteins to be expressed, to make nucleic acids to use as probes for detecting the presence of the desired mRNA in samples, for nucleic acid sequencing, or for other purposes. Examples of techniques sufficient to direct persons of skill through in vitro amplification methods are found in Berger, supra, Sambrook, supra, and Ausubel, supra, as well as Mullis, et al., U.S. Pat. No.4,683,202 (1987); and Innis, et al., PCR Protocols A Guide to Methods and Applications, Eds., Academic Press Inc., San Diego, Calif. (1990). Commercially available kits for genomic PCR amplification are known in the art. See, e.g., Advantage-GC Genomic PCR Kit (Clontech). Additionally, e.g., the T4 gene 32 protein (Boehringer Mannheim) can be used to improve yield of long PCR products. Synthetic Methods for Constructing Nucleic Acids [0266] The isolated nucleic acids of the disclosure can also be prepared by direct chemical synthesis by known methods (see, e.g., Ausubel, et al., supra). Chemical synthesis generally produces a single-stranded oligonucleotide, which can be converted into double-stranded DNA by hybridization with a complementary sequence, or by polymerization with a DNA polymerase using the single strand as a template. One of skill in the art will recognize that while chemical synthesis of DNA can be limited to sequences of about 100 or more bases, longer sequences can be obtained by the ligation of shorter sequences. Recombinant Expression Cassettes [0267] The disclosure further provides recombinant expression cassettes comprising a nucleic acid of the disclosure. A nucleic acid sequence of the disclosure can be used to construct a recombinant expression cassette that can be introduced into at least one desired host cell. A recombinant expression cassette will typically comprise a polynucleotide of the disclosure operably linked to transcriptional initiation regulatory sequences that will direct the transcription of the polynucleotide in the intended host cell. Both heterologous and non-heterologous (i.e., endogenous) promoters can be employed to direct expression of the nucleic acids of the disclosure. [0268] In some aspects, isolated nucleic acids that serve as promoter, enhancer, or other elements can be introduced in the appropriate position (upstream, downstream or in the intron) of a non-heterologous form of a polynucleotide of the disclosure so as to up or down regulate expression of a polynucleotide of the disclosure. For example, endogenous promoters can be altered in vivo or in vitro by mutation, deletion and/or substitution. Expression Vectors and Host Cells [0269] The disclosure also relates to vectors that include isolated nucleic acid molecules of the disclosure and host cells that are genetically engineered with the recombinant vectors, as is well known in the art. See, e.g., Sambrook, et al., supra; Ausubel, et al., supra, each entirely incorporated herein by reference. [0270] The polynucleotides can optionally be joined to a vector containing a selectable marker for propagation in a host. Generally, a plasmid vector is introduced in a precipitate, such as a calcium phosphate precipitate, or in a complex with a charged lipid. If the vector is a virus, it can be packaged in vitro using an appropriate packaging cell line and then transduced into host cells. [0271] The DNA insert should be operatively linked to an appropriate promoter. The expression constructs will further contain sites for transcription initiation, termination and, in the transcribed region, a ribosome binding site for translation. The coding portion of the mature transcripts expressed by the constructs will preferably include a translation initiating at the beginning and a termination codon (e.g., UAA, UGA or UAG) appropriately positioned at the end of the mRNA to be translated, with UAA and UAG preferred for mammalian or eukaryotic cell expression. [0272] Expression vectors will preferably but optionally include at least one selectable marker. Such markers include, e.g., but are not limited to, ampicillin, zeocin (Sh bla gene), puromycin (pac gene), hygromycin B (hygB gene), G418/Geneticin (neo gene), DHFR (encoding Dihydrofolate Reductase and conferring resistance to Methotrexate), mycophenolic acid, or glutamine synthetase (GS, U.S. Pat. Nos.5,122,464; 5,770,359; 5,827,739), blasticidin (bsd gene), resistance genes for eukaryotic cell culture as well as ampicillin, zeocin (Sh bla gene), puromycin (pac gene), hygromycin B (hygB gene), G418/Geneticin (neo gene), kanamycin, spectinomycin, streptomycin, carbenicillin, bleomycin, erythromycin, polymyxin B, or tetracycline resistance genes for culturing in E. coli and other bacteria or prokaryotics (the above patents are entirely incorporated hereby by reference). Appropriate culture mediums and conditions for the above-described host cells are known in the art. Suitable vectors will be readily apparent to the skilled artisan. Introduction of a vector construct into a host cell can be effected by calcium phosphate transfection, DEAE-dextran mediated transfection, cationic lipid- mediated transfection, electroporation, transduction, infection or other known methods. Such methods are described in the art, such as Sambrook, supra, Chapters 1-4 and 16-18; Ausubel, supra, Chapters 1, 9, 13, 15, 16. [0273] Expression vectors will preferably but optionally include at least one selectable cell surface marker for isolation of cells modified by the compositions and methods of the disclosure. Selectable cell surface markers of the disclosure comprise surface proteins, glycoproteins, or group of proteins that distinguish a cell or subset of cells from another defined subset of cells. Preferably the selectable cell surface marker distinguishes those cells modified by a composition or method of the disclosure from those cells that are not modified by a composition or method of the disclosure. Such cell surface markers include, e.g., but are not limited to, “cluster of designation” or “classification determinant” proteins (often abbreviated as “CD”) such as a truncated or full length form of CD19, CD271, CD34, CD22, CD20, CD33, CD52, or any combination thereof. Cell surface markers further include the suicide gene marker RQR8 (Philip B et al. Blood.2014 Aug 21; 124(8):1277-87). [0274] Expression vectors will preferably but optionally include at least one selectable drug resistance marker for isolation of cells modified by the compositions and methods of the disclosure. Selectable drug resistance markers of the disclosure may comprise wild-type or mutant Neo, DHFR, TYMS, FRANCF, RAD51C, GCS, MDR1, ALDH1, NKX2.2, or any combination thereof. [0275] Those of ordinary skill in the art are knowledgeable in the numerous expression systems available for expression of a nucleic acid molecule encoding a protein of the disclosure. Definitions [0276] As used throughout the disclosure, the singular forms “a,” “and,” and “the” include plural referents unless the context clearly dictates otherwise. Thus, for example, reference to “a method” includes a plurality of such methods and reference to “a dose” includes reference to one or more doses and equivalents thereof known to those skilled in the art, and so forth. [0277] The term “about” or “approximately” means within an acceptable error range for the particular value as determined by one of ordinary skill in the art, which will depend in part on how the value is measured or determined, e.g., the limitations of the measurement system. For example, “about” can mean within 1 or more standard deviations. Alternatively, “about” can mean a range of up to 20%, or up to 10%, or up to 5%, or up to 1% of a given value. Alternatively, particularly with respect to biological systems or processes, the term can mean within an order of magnitude, preferably within 5-fold, and more preferably within 2-fold, of a value. Where particular values are described in the application and claims, unless otherwise stated the term “about” meaning within an acceptable error range for the particular value should be assumed. [0278] In the chemical formulas shown herein, the marking indicates the position where a functional group bonds to another portion of a molecule. Definitions of specific functional groups and chemical terms are described in more detail below. [0279] Certain compounds of the present invention may exist in particular geometric or stereoisomeric forms. The present invention contemplates all such compounds, including cis- and trans-isomers, R- and S-enantiomers, diastereomers, (D)-isomers, (L)-isomers, the racemic mixtures thereof, and other mixtures thereof, as falling within the scope of the invention. Additional asymmetric carbon atoms may be present in a substituent such as an alkyl group. All such isomers, as well as mixtures thereof, are intended to be included in this invention. [0280] Isomeric mixtures containing any of a variety of isomer ratios may be utilized in accordance with the present invention. For example, where only two isomers are combined, mixtures containing 50:50, 60:40, 70:30, 80:20, 90:10, 95:5, 96:4, 97:3, 98:2, 99:1, or 100:0 isomer ratios are all contemplated by the present invention. Those of ordinary skill in the art will readily appreciate that analogous ratios are contemplated for more complex isomer mixtures. [0281] If, for instance, a particular enantiomer of a compound of the present invention is desired, it may be prepared by asymmetric synthesis, or by derivation with a chiral auxiliary, where the resulting diastereomeric mixture is separated and the auxiliary group cleaved to provide the pure desired enantiomers. Alternatively, where the molecule contains a basic functional group, such as amino, or an acidic functional group, such as carboxyl, diastereomeric salts are formed with an appropriate optically-active acid or base, followed by resolution of the diastereomers thus formed by fractional crystallization or chromatographic means well known in the art, and subsequent recovery of the pure enantiomers. [0282] One of ordinary skill in the art will appreciate that the synthetic methods, as described herein, utilize a variety of protecting groups. By the term "protecting group," as used herein, it is meant that a particular functional moiety, e.g., O, S, or N, is temporarily blocked so that a reaction can be carried out selectively at another reactive site in a multifunctional compound. In certain embodiments, a protecting group reacts selectively in good yield to give a protected substrate that is stable to the projected reactions; the protecting group should be selectively removable in good yield by readily available, preferably non-toxic reagents that do not attack the other functional groups; the protecting group forms an easily separable derivative (more preferably without the generation of new stereogenic centers); and the protecting group has a minimum of additional functionality to avoid further sites of reaction. As detailed herein, oxygen, sulfur, nitrogen, and carbon protecting groups may be utilized. [0283] The term "aliphatic," as used herein, includes both saturated and unsaturated, straight chain (i.e., unbranched), branched, acyclic, cyclic, or polycyclic aliphatic hydrocarbons, which are optionally substituted with one or more functional groups. As will be appreciated by one of ordinary skill in the art, "aliphatic" is intended herein to include, but is not limited to, alkyl, alkenyl, alkynyl, cycloalkyl, cycloalkenyl, and cycloalkynyl moieties. Thus, as used herein, the term "alkyl" includes straight, branched and cyclic alkyl groups. An analogous convention applies to other generic terms such as "alkenyl," "alkynyl," and the like. Furthermore, as used herein, the terms "alkyl," "alkenyl," "alkynyl," and the like encompass both substituted and unsubstituted groups. In certain embodiments, as used herein, "lower alkyl" is used to indicate those alkyl groups (cyclic, acyclic, substituted, unsubstituted, branched or unbranched) having 1- 6 carbon atoms. [0284] In certain embodiments, the alkyl, alkenyl, and alkynyl groups employed in the invention contain 1-18 aliphatic carbon atoms. In certain embodiments, the alkyl, alkenyl, and alkynyl groups employed in the invention contain 6-18 aliphatic carbon atoms. In certain embodiments, the alkyl, alkenyl, and alkynyl groups employed in the invention contain 1-15 aliphatic carbon atoms. In certain other embodiments, the alkyl, alkenyl, and alkynyl groups employed in the invention contain 1-10 aliphatic carbon atoms. In yet other embodiments, the alkyl, alkenyl, and alkynyl groups employed in the invention contain 1-8 aliphatic carbon atoms. In still other embodiments, the alkyl, alkenyl, and alkynyl groups employed in the invention contain 1-6 aliphatic carbon atoms. In yet other embodiments, the alkyl, alkenyl, and alkynyl groups employed in the invention contain 1-4 carbon atoms. Illustrative aliphatic groups thus include, but are not limited to, for example, methyl, ethyl, n-propyl, isopropyl, cyclopropyl, --CH2- cyclopropyl, vinyl, allyl, n-butyl, sec-butyl, isobutyl, tert-butyl, cyclobutyl, --CH2-cyclobutyl, n- pentyl, sec-pentyl, isopentyl, tert-pentyl, cyclopentyl, --CH2-cyclopentyl, n-hexyl, sec-hexyl, cyclohexyl, --CH2-cyclohexyl moieties and the like, which again, may bear one or more substituents. Alkenyl groups include, but are not limited to, for example, ethenyl, propenyl, butenyl, 1-methyl-2-buten-1-yl, and the like. Representative alkynyl groups include, but are not limited to, ethynyl, 2-propynyl (propargyl), 1-propynyl, and the like. [0285] The term "alkyl" as used herein refers to saturated, straight- (e.g., unbranched) or branched-chain aliphatic groups having from 1 to 18 carbon atoms. As such, "alkyl" encompasses C1, C2, C3, C4, C5, C6, C7, C8, C9, C10, C11 and C12 groups. Examples of alkyl groups include, but are not limited to, methyl, ethyl, propyl, isopropyl, n-butyl, tert-butyl, n- pentyl, neopentyl, n-hexyl, n-heptyl, n-octyl, n-decyl, n-undecyl, and dodecyl. [0286] The term “alkylene” refers to a divalent alkyl radical. Any of the above-mentioned monovalent alkyl groups may be an alkylene by abstraction of a second hydrogen atom from the alkyl. As herein defined, alkylene may also be a C1-C18 alkylene. An alkylene may further be a C1-C12 alkylene. Typical alkylene groups include, but are not limited to, -CH2-, -CH(CH3)-, - C(CH3)2-, -CH2CH2-, -CH2CH(CH3)-, -CH2C(CH3)2-, -CH2CH2CH2-, -CH2CH2CH2CH2-, and the like. [0287] The term "alkenyl" refers to an unsaturated straight or, when applicable, branched chain aliphatic group with one or more carbon-carbon double bonds, having from 2 to 18 carbon atoms. As such, "alkenyl" encompasses C2, C3, C4, C5, C6, C7, C8, C9, C10, C11 and C12 groups. Alkenyl groups include, for example, ethenyl, propenyl, butenyl, 1-methyl-2-buten-1-yl, and the like. [0288] The term "alkynyl" refers to an unsaturated straight or, when applicable, branched chain aliphatic group with one or more carbon-carbon triple bonds, having from 2 to 18 carbon atoms. As such, "alkynyl" encompasses C2, C3, C4, C5, C6, C7, C8, C9, C10, C11 and C12 groups. Representative alkynyl groups include ethynyl, 2-propynyl (propargyl), 1-propynyl, and the like. [0289] As used herein, the term "aryl" group is a C6 - C14 aromatic moiety comprising one to three aromatic rings, which is optionally substituted. As such, "aryl" includes C6, C7, C8, C9, C10, C11, C12 C13, and C14 cyclic hydrocarbon groups. An exemplary aryl group is a C6-C10 aryl group. Particular aryl groups include, without limitation, phenyl, naphthyl, anthracenyl, and fluorenyl. [0290] As used herein, the term "cycloalkyl" as employed herein includes saturated and partially unsaturated cyclic hydrocarbon groups having 3 to 12 carbons. As such, "cycloalkyl" includes C3, C4, C5, C6, C7, C8, C9, C10, C11 and C12 cyclic hydrocarbon groups. Representative cycloalkyl groups include, without limitation, cyclopropyl, cyclobutyl, cyclopentyl, cyclopentenyl, cyclohexyl, cyclohexenyl, cycloheptyl, and cyclooctyl. [0291] As used herein, the term “hydroxyalkyl” refers to -alkyl-OH or an alkyl chain substituted with at least one -OH. [0292] As used herein, the term “halo” or “halogen” refers to fluoro, chloro, bromo and iodo. [0293] It will be understood that the compounds of any one of the Formulae disclosed herein and any pharmaceutically acceptable salts thereof, comprise stereoisomers, mixtures of stereoisomers, polymorphs of all isomeric forms of said compounds. [0294] The term "independently selected" is used herein to indicate that the R groups can be identical or different. [0295] The term "substituted," whether preceded by the term "optionally" or not, and "substituent," as used herein, refer to the ability, as appreciated by one skilled in this art, to change one functional group for another functional group provided that the valency of all atoms is maintained. When more than one position in any given structure may be substituted with more than one substituent selected from a specified group, the substituent may be either the same or different at every position. The substituents may also be further substituted (e.g., an aryl group substituent may have another substituent off it, such as another aryl group, which is further substituted with fluorine at one or more positions). [0296] The disclosure provides isolated or substantially purified polynucleotide or protein compositions. An "isolated" or "purified" polynucleotide or protein, or biologically active portion thereof, is substantially or essentially free from components that normally accompany or interact with the polynucleotide or protein as found in its naturally occurring environment. Thus, an isolated or purified polynucleotide or protein is substantially free of other cellular material or culture medium when produced by recombinant techniques, or substantially free of chemical precursors or other chemicals when chemically synthesized. Optimally, an "isolated" polynucleotide is free of sequences (optimally protein encoding sequences) that naturally flank the polynucleotide (i.e., sequences located at the 5' and 3' ends of the polynucleotide) in the genomic DNA of the organism from which the polynucleotide is derived. For example, in various aspects, the isolated polynucleotide can contain less than about 5 kb, 4 kb, 3 kb, 2 kb, 1 kb, 0.5 kb, or 0.1 kb of nucleotide sequence that naturally flank the polynucleotide in genomic DNA of the cell from which the polynucleotide is derived. A protein that is substantially free of cellular material includes preparations of protein having less than about 30%, 20%, 10%, 5%, or 1% (by dry weight) of contaminating protein. When the protein of the disclosure or biologically active portion thereof is recombinantly produced, optimally culture medium represents less than about 30%, 20%, 10%, 5%, or 1% (by dry weight) of chemical precursors or non-protein-of- interest chemicals. [0297] The disclosure provides fragments and variants of the disclosed DNA sequences and proteins encoded by these DNA sequences. As used throughout the disclosure, the term "fragment" refers to a portion of the DNA sequence or a portion of the amino acid sequence and hence protein encoded thereby. Fragments of a DNA sequence comprising coding sequences may encode protein fragments that retain biological activity of the native protein and hence DNA recognition or binding activity to a target DNA sequence as herein described. Alternatively, fragments of a DNA sequence that are useful as hybridization probes generally do not encode proteins that retain biological activity or do not retain promoter activity. Thus, fragments of a DNA sequence may range from at least about 20 nucleotides, about 50 nucleotides, about 100 nucleotides, and up to the full-length polynucleotide of the disclosure. [0298] Nucleic acids or proteins of the disclosure can be constructed by a modular approach including preassembling monomer units and/or repeat units in target vectors that can subsequently be assembled into a final destination vector. Polypeptides of the disclosure may comprise repeat monomers of the disclosure and can be constructed by a modular approach by preassembling repeat units in target vectors that can subsequently be assembled into a final destination vector. The disclosure provides polypeptide produced by this method as well nucleic acid sequences encoding these polypeptides. The disclosure provides host organisms and cells comprising nucleic acid sequences encoding polypeptides produced this modular approach. [0299] The term "antibody" is used in the broadest sense and specifically covers single monoclonal antibodies (including agonist and antagonist antibodies) and antibody compositions with polyepitopic specificity. It is also within the scope hereof to use natural or synthetic analogs, mutants, variants, alleles, homologs and orthologs (herein collectively referred to as “analogs”) of the antibodies hereof as defined herein. Thus, according to an aspect hereof, the term “antibody hereof” in its broadest sense also covers such analogs. Generally, in such analogs, one or more amino acid residues may have been replaced, deleted and/or added, compared to the antibodies hereof as defined herein. [0300] The term "comprising" is intended to mean that the compositions and methods include the recited elements, but do not exclude others. "Consisting essentially of” when used to define compositions and methods, shall mean excluding other elements of any essential significance to the combination when used for the intended purpose. Thus, a composition consisting essentially of the elements as defined herein would not exclude trace contaminants or inert carriers. "Consisting of” shall mean excluding more than trace elements of other ingredients and substantial method steps. Aspects defined by each of these transition terms are within the scope of this disclosure. [0301] As used herein, "expression" refers to the process by which polynucleotides are transcribed into mRNA and/or the process by which the transcribed mRNA is subsequently being translated into peptides, polypeptides, or proteins. If the polynucleotide is derived from genomic DNA, expression may include splicing of the mRNA in a eukaryotic cell. [0302] “Gene expression” refers to the conversion of the information, contained in a gene, into a gene product. A gene product can be the direct transcriptional product of a gene (e.g., mRNA, tRNA, rRNA, antisense RNA, ribozyme, shRNA, micro RNA, structural RNA or any other type of RNA) or a protein produced by translation of an mRNA. Gene products also include RNAs which are modified, by processes such as capping, polyadenylation, methylation, and editing, and proteins modified by, for example, methylation, acetylation, phosphorylation, ubiquitination, ADP-ribosylation, myristilation, and glycosylation. [0303] “Modulation” or “regulation” of gene expression refers to a change in the activity of a gene. Modulation of expression can include, but is not limited to, gene activation and gene repression. [0304] The term “operatively linked” or its equivalents (e.g., “linked operatively”) means two or more molecules are positioned with respect to each other such that they are capable of interacting to affect a function attributable to one or both molecules or a combination thereof. [0305] Non-covalently linked components and methods of making and using non-covalently linked components, are disclosed. The various components may take a variety of different forms as described herein. For example, non-covalently linked (i.e., operatively linked) proteins may be used to allow temporary interactions that avoid one or more problems in the art. The ability of non-covalently linked components, such as proteins, to associate and dissociate enables a functional association only or primarily under circumstances where such association is needed for the desired activity. The linkage may be of duration sufficient to allow the desired effect. [0306] A method for directing proteins to a specific locus in a genome of an organism is disclosed. The method may comprise the steps of providing a DNA localization component and providing an effector molecule, wherein the DNA localization component and the effector molecule are capable of operatively linking via a non-covalent linkage. [0307] A “target site” or “target sequence” is a nucleic acid sequence that defines a portion of a nucleic acid to which a binding molecule will bind, provided sufficient conditions for binding exist. [0308] The terms "nucleic acid" or "oligonucleotide" or "polynucleotide" refer to at least two nucleotides covalently linked together. The depiction of a single strand also defines the sequence of the complementary strand. Thus, a nucleic acid may also encompass the complementary strand of a depicted single strand. A nucleic acid of the disclosure also encompasses substantially identical nucleic acids and complements thereof that retain the same structure or encode for the same protein. [0309] Probes of the disclosure may comprise a single stranded nucleic acid that can hybridize to a target sequence under stringent hybridization conditions. Thus, nucleic acids of the disclosure may refer to a probe that hybridizes under stringent hybridization conditions. [0310] Nucleic acids of the disclosure may be single- or double-stranded. Nucleic acids of the disclosure may contain double-stranded sequences even when the majority of the molecule is single-stranded. Nucleic acids of the disclosure may contain single-stranded sequences even when the majority of the molecule is double-stranded. Nucleic acids of the disclosure may include genomic DNA, cDNA, RNA, or a hybrid thereof. Nucleic acids of the disclosure may contain combinations of deoxyribo- and ribo-nucleotides. Nucleic acids of the disclosure may contain combinations of bases including uracil, adenine, thymine, cytosine, guanine, inosine, xanthine hypoxanthine, isocytosine and isoguanine. Nucleic acids of the disclosure may be synthesized to comprise non-natural amino acid modifications. Nucleic acids of the disclosure may be obtained by chemical synthesis methods or by recombinant methods. [0311] Nucleic acids of the disclosure, either their entire sequence, or any portion thereof, may be non-naturally occurring. Nucleic acids of the disclosure may contain one or more mutations, substitutions, deletions, or insertions that do not naturally-occur, rendering the entire nucleic acid sequence non-naturally occurring. Nucleic acids of the disclosure may contain one or more duplicated, inverted or repeated sequences, the resultant sequence of which does not naturally- occur, rendering the entire nucleic acid sequence non-naturally occurring. Nucleic acids of the disclosure may contain modified, artificial, or synthetic nucleotides that do not naturally-occur, rendering the entire nucleic acid sequence non-naturally occurring. [0312] Given the redundancy in the genetic code, a plurality of nucleotide sequences may encode any particular protein. All such nucleotides sequences are contemplated herein. [0313] As used throughout the disclosure, the term "operably linked" refers to the expression of a gene that is under the control of a promoter with which it is spatially connected. A promoter can be positioned 5' (upstream) or 3' (downstream) of a gene under its control. The distance between a promoter and a gene can be approximately the same as the distance between that promoter and the gene it controls in the gene from which the promoter is derived. Variation in the distance between a promoter and a gene can be accommodated without loss of promoter function. [0314] As used throughout the disclosure, the term "promoter" refers to a synthetic or naturally- derived molecule which is capable of conferring, activating or enhancing expression of a nucleic acid in a cell. A promoter can comprise one or more specific transcriptional regulatory sequences to further enhance expression and/or to alter the spatial expression and/or temporal expression of same. A promoter can also comprise distal enhancer or repressor elements, which can be located as much as several thousand base pairs from the start site of transcription. A promoter can be derived from sources including viral, bacterial, fungal, plants, insects, and animals. A promoter can regulate the expression of a gene component constitutively or differentially with respect to cell, the tissue or organ in which expression occurs or, with respect to the developmental stage at which expression occurs, or in response to external stimuli such as physiological stresses, pathogens, metal ions, or inducing agents. Representative examples of promoters include the bacteriophage T7 promoter, bacteriophage T3 promoter, SP6 promoter, lac operator-promoter, tac promoter, SV40 late promoter, SV40 early promoter, RSV-LTR promoter, CMV IE promoter, EF-1 Alpha promoter, CAG promoter, SV40 early promoter or SV40 late promoter and the CMV IE promoter. [0315] As used throughout the disclosure, the term “substantially complementary" refers to a first sequence that is at least 60%, 65%, 70%, 75%, 80%, 85%, 90%, 95%, 97%, 98% or 99% identical to the complement of a second sequence over a region of 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 180, 270, 360, 450, 540, or more nucleotides or amino acids, or that the two sequences hybridize under stringent hybridization conditions. [0316] As used throughout the disclosure, the term "substantially identical" refers to a first and second sequence are at least 60%, 65%, 70%, 75%, 80%, 85%, 90%, 95%, 97%, 98% or 99% identical over a region of 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 180, 270, 360, 450, 540 or more nucleotides or amino acids, or with respect to nucleic acids, if the first sequence is substantially complementary to the complement of the second sequence. [0317] As used throughout the disclosure, the term "variant" when used to describe a nucleic acid, refers to (i) a portion or fragment of a referenced nucleotide sequence; (ii) the complement of a referenced nucleotide sequence or portion thereof; (iii) a nucleic acid that is substantially identical to a referenced nucleic acid or the complement thereof; or (iv) a nucleic acid that hybridizes under stringent conditions to the referenced nucleic acid, complement thereof, or a sequences substantially identical thereto. [0318] As used throughout the disclosure, the term "vector" refers to a nucleic acid sequence containing an origin of replication. A vector can be a viral vector, bacteriophage, bacterial artificial chromosome or yeast artificial chromosome. A vector can be a DNA or RNA vector. A vector can be a self-replicating extrachromosomal vector, and preferably, is a DNA plasmid. A vector may comprise a combination of an amino acid with a DNA sequence, an RNA sequence, or both a DNA and an RNA sequence. [0319] As used throughout the disclosure, the term "variant" when used to describe a peptide or polypeptide, refers to a peptide or polypeptide that differs in amino acid sequence by the insertion, deletion, or conservative substitution of amino acids, but retain at least one biological activity. Variant can also mean a protein with an amino acid sequence that is substantially identical to a referenced protein with an amino acid sequence that retains at least one biological activity. [0320] A conservative substitution of an amino acid, i.e., replacing an amino acid with a different amino acid of similar properties (e.g., hydrophilicity, degree and distribution of charged regions) is recognized in the art as typically involving a minor change. These minor changes can be identified, in part, by considering the hydropathic index of amino acids, as understood in the art. Kyte et al., J. Mol. Biol.157: 105-132 (1982). The hydropathic index of an amino acid is based on a consideration of its hydrophobicity and charge. Amino acids of similar hydropathic indexes can be substituted and still retain protein function. In an aspect, amino acids having hydropathic indexes of ±2 are substituted. The hydrophilicity of amino acids can also be used to reveal substitutions that would result in proteins retaining biological function. A consideration of the hydrophilicity of amino acids in the context of a peptide permits calculation of the greatest local average hydrophilicity of that peptide, a useful measure that has been reported to correlate well with antigenicity and immunogenicity. U.S. Patent No.4,554,101, incorporated fully herein by reference. [0321] Substitution of amino acids having similar hydrophilicity values can result in peptides retaining biological activity, for example immunogenicity. Substitutions can be performed with amino acids having hydrophilicity values within ±2 of each other. Both the hydrophobicity index and the hydrophilicity value of amino acids are influenced by the particular side chain of that amino acid. Consistent with that observation, amino acid substitutions that are compatible with biological function are understood to depend on the relative similarity of the amino acids, and particularly the side chains of those amino acids, as revealed by the hydrophobicity, hydrophilicity, charge, size, and other properties. [0322] As used herein, “conservative” amino acid substitutions may be defined as set out in Tables 1, 2, or 3 below. In some aspects, fusion polypeptides and/or nucleic acids encoding such fusion polypeptides include conservative substitutions have been introduced by modification of polynucleotides encoding polypeptides of the disclosure. Amino acids can be classified according to physical properties and contribution to secondary and tertiary protein structure. A conservative substitution is a substitution of one amino acid for another amino acid that has similar properties. Exemplary conservative substitutions are set out in Table 1. [0323] Table 1 – Conservative Substitutions I [0324] Alternately, conservative amino acids can be grouped as described in Lehninger, (Biochemistry, Second Edition; Worth Publishers, Inc. NY, N.Y. (1975), pp.71-77) as set forth in Table 2. [0325] Table 2 - Conservative Substitutions II [0326] Alternately, exemplary conservative substitutions are set out in Table 3. Table 3 - Conservative Substitutions III
[0327] It should be understood that the polypeptides of the disclosure are intended to include polypeptides bearing one or more insertions, deletions, or substitutions, or any combination thereof, of amino acid residues as well as modifications other than insertions, deletions, or substitutions of amino acid residues. Polypeptides or nucleic acids of the disclosure may contain one or more conservative substitution. [0328] As used throughout the disclosure, the term “more than one” of the aforementioned amino acid substitutions refers to 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, or 20 or more of the recited amino acid substitutions. The term “more than one” may refer to 2, 3, 4, or 5 of the recited amino acid substitutions. [0329] Polypeptides and proteins of the disclosure, either their entire sequence, or any portion thereof, may be non-naturally occurring. Polypeptides and proteins of the disclosure may contain one or more mutations, substitutions, deletions, or insertions that do not naturally-occur, rendering the entire amino acid sequence non-naturally occurring. Polypeptides and proteins of the disclosure may contain one or more duplicated, inverted or repeated sequences, the resultant sequence of which does not naturally-occur, rendering the entire amino acid sequence non- naturally occurring. Polypeptides and proteins of the disclosure may contain modified, artificial, or synthetic amino acids that do not naturally-occur, rendering the entire amino acid sequence non-naturally occurring. [0330] As used throughout the disclosure, “sequence identity” may be determined by using the stand-alone executable BLAST engine program for blasting two sequences (bl2seq), which can be retrieved from the National Center for Biotechnology Information (NCBI) ftp site, using the default parameters (Tatusova and Madden, FEMS Microbiol Lett., 1999, 174, 247-250; which is incorporated herein by reference in its entirety). The terms "identical" or "identity" when used in the context of two or more nucleic acids or polypeptide sequences, refer to a specified percentage of residues that are the same over a specified region of each of the sequences. The percentage can be calculated by optimally aligning the two sequences, comparing the two sequences over the specified region, determining the number of positions at which the identical residue occurs in both sequences to yield the number of matched positions, dividing the number of matched positions by the total number of positions in the specified region, and multiplying the result by 100 to yield the percentage of sequence identity. In cases where the two sequences are of different lengths or the alignment produces one or more staggered ends and the specified region of comparison includes only a single sequence, the residues of single sequence are included in the denominator but not the numerator of the calculation. When comparing DNA and RNA, thymine (T) and uracil (U) can be considered equivalent. Identity can be performed manually or by using a computer sequence algorithm such as BLAST or BLAST 2.0. [0331] As used throughout the disclosure, the term "endogenous" refers to nucleic acid or protein sequence naturally associated with a target gene or a host cell into which it is introduced. [0332] As used throughout the disclosure, the term "exogenous" refers to nucleic acid or protein sequence not naturally associated with a target gene or a host cell into which it is introduced, including non-naturally occurring multiple copies of a naturally occurring nucleic acid, e.g., DNA sequence, or naturally occurring nucleic acid sequence located in a non-naturally occurring genome location. [0333] The disclosure provides methods of introducing a polynucleotide construct comprising a DNA sequence into a host cell. By "introducing" is intended presenting to the cell the polynucleotide construct in such a manner that the construct gains access to the interior of the host cell. The methods of the disclosure do not depend on a particular method for introducing a polynucleotide construct into a host cell, only that the polynucleotide construct gains access to the interior of one cell of the host. Methods for introducing polynucleotide constructs into bacteria, plants, fungi and animals are known in the art including, but not limited to, stable transformation methods, transient transformation methods, and virus-mediated methods. [0334] EXAMPLES [0335] For the following Examples, Compound Numbers are assigned to compounds of Formula (I) of the present disclosure according to the following:
[0336] Example 1— Preparation of COMPOUND NO.2 [0337] COMPOUND NO.2 was prepared in accordance with General Scheme A.1. 1H NMR (500 MHz, Acetone) δ 7.23 – 7.09 (m, 6H), 4.50 (s, 6H), 2.81 (q, J = 6.1 Hz, 1H). MS found 584.9 [M+Na]+, calcd for [C25H22O15=562.1]. [0338] Example 2— Preparation of COMPOUND NO.3 [0339] COMPOUND NO.3 was prepared in accordance with General Scheme A.1. 1H NMR (500 MHz, Acetone) δ 7.16 (s, 8H), 4.61 (s, 8H). MS found 766.9 [M+Na]+, calcd for [C33H28O20=744.1]. [0340] Example 3— Preparation of COMPOUND NO.5a [0341] Intermediate 4 was prepared in accordance with General Scheme A.1. Separation of intermediates 4a and 4b was achieved by TLC using DCM:Tol:EA (75:25:1). [0342] Synthesis of COMPOUND NO.5a [0343] Pd/C (10mg) was added to intermediate 4a (31mg, 0.013mmol) in THF (5mL) after purging with N2. The mixture was stirred under H2 balloon at 40oC overnight. The mixture was then filtered through a pad of celite and concentrated. Purification by precipitation (THF/DCM) afforded intermediate 4a (7.5mg, 59%) as a white solid. 1H NMR (500 MHz, Acetone) δ 7.18 (s, 2H), 7.11 (s, 2H), 7.07 – 7.04 (m, 2H), 7.04 – 7.00 (m, 2H), 6.97 (d, J = 4.8 Hz, 2H), 6.33 (d, J = 8.3 Hz, 1H), 6.00 (t, J = 9.7 Hz, 1H), 5.71 – 5.56 (m, 2H), 4.62 – 4.48 (m, 2H), 4.41 (dd, J = 12.8, 4.7 Hz, 1H). MS found 963.1 [M+Na]+, calcd for [C41H32O26=940.1]. [0344] Example 4— Preparation of COMPOUND NO.5b [0345] COMPOUND NO.5b was prepared in accordance with Example 3. 1H NMR (500 MHz, Acetone) δ 7.28 (s, 2H), 7.20 (s, 2H), 7.08 (s, 2H), 7.00 (d, J = 3.0 Hz, 4H), 6.74 (d, J = 3.7 Hz, 1H), 6.18 (t, J = 10.1 Hz, 1H), 5.78 (t, J = 10.0 Hz, 1H), 5.48 (dd, J = 10.4, 3.7 Hz, 1H), 4.69 (dt, J = 10.3, 3.1 Hz, 1H), 4.53 (dd, J = 12.6, 2.2 Hz, 1H), 4.41 (dd, J = 12.7, 3.8 Hz, 1H). MS found 963.0 [M+Na]+, calcd for [C41H32O26=940.1]. [0346] Example 5— Preparation of COMPOUND NO.6 [0347] COMPOUND NO.6 was prepared in accordance with General Scheme A.1. 1H NMR (500 MHz, Acetone) δ 7.24 (s, 2H), 6.99 (d, J = 3.8 Hz, 6H), 6.96 (s, 4H), 6.25 (t, J = 2.9 Hz, 1H), 6.20 (t, J = 10.2 Hz, 2H), 6.14 – 6.08 (m, 1H), 5.88 (dd, J = 10.2, 3.0 Hz, 2H). MS found 1115.1 [M+Na]+, calcd for [C48H36O30=1092.1]. [0348] Example 6— Preparation of COMPOUND NO.7 [0349] COMPOUND NO.7 was prepared in accordance with General Scheme A.1. 1H NMR (500 MHz, Acetone) δ 7.85-8.43 (br, m, 21H), 7.23 (ds, 4H), 7.21 (s, 2H), 7.12 (s, 2H), 7.01 (s, 2H), 6.95 (d, J = 7.4 Hz, 4H), 6.06 (dd, J = 8.5, 2.9 Hz, 1H), 5.97 – 5.85 (m, 3H), 5.71 (d, J = 7.9 Hz, 1H), 4.60 – 4.43 (m, 3H), 4.36 (dd, J = 11.9, 8.7 Hz, 1H). MS found 1299.3 [M+Na]+, calcd for [C56H44O35=1276.2]. [0350] Example 7— Preparation of COMPOUND NO.9 [0351] COMPOUND NO.9 was prepared in accordance with General Scheme A.2. 1H NMR (500 MHz, Acetone) δ 8.0-8.50 (m, 18H), 7.21 (s, 4H), 7.10 (s, 4H), 7.03 (s, 4H), 6.0-600 (m, 2H), 5.78-5.74 (m,2H) 4.71-4.68 (m,2H), 4.56-4.52 (m,2H). MS found 1093.2 [M]-, calcd for [C48H38O30=1094.1]. [0352] Example 8— Preparation of COMPOUND NO.11 [0353] COMPOUND NO.11 was prepared in accordance with General Scheme A.2. 1H NMR (500 MHz, Acetone) δ 8.0 – 8.50 (br, m, 24H), 7.29 (s, 4H), 7.18 (s, 4H), 7.04 (s, 4H), 6.98 (s, 4H), 6.06 (d, J = 10 Hz, 2H), 5.7-5.68 (m, 2H), 5.66(t, J = 10 Hz, 2H), 5.32 – 5.29 (dd, J=5.0, 10Hz, 2H), 4.29-4.26 (m, 2H), 3.94-3.91 (m, 2H), 3.79-3.76 (m, 2H). MS found 1581.1 [M+Na]+, calcd for [C68H54O43=1558.2]. [0354] Example 9— Preparation of COMPOUND NO.15 [0355] COMPOUND NO.15 was prepared in accordance with General Scheme A.3. 1H NMR (500 MHz, Acetone) δ 7.17 (s, 4H), 7.07 (s, 4H), 5.96 (t, J=10Hz, 2H), 5.51(d, J=5 Hz, 2H), 5.32-5.25 (m,4H) 4.15-4.13 (m,2H), 3.83-3.80(m, 2H), 3.62-3.59 (m, 2H), 2.17-2.27 (m,8H), 1.6-1.54 (m, 8H), 1.38-1.21 (m, 56H), 1.12-1.10(m, 8H), 0.85-0.87(m, 12H). MS found 1702.2 [M+Na]+, calcd for [C88H126O31=1678.8]. [0356] Example 10— Preparation of COMPOUND NO.16 [0357] COMPOUND NO.16 was prepared in accordance with General Scheme A.3. 1H NMR (500 MHz, Acetone) δ 7.19 (s, 2H), 7.07 (s, 2H), 7.02 (s, 2H), 6.93 (s, 2H), 5.80 (t, J=10Hz, 1H), 5.50(t, J=5 Hz, 1H), 5.32-5.29 (dd, J=5Hz, 7.5Hz, 1H), 5.01 (d,J=10Hz, 1H), 4.51-4.48(m, 1H), 4.39-4.35 (m, 1H), 4.31-4.28(m, 1H), 3.89-3.85 (m, 1H), 3.62-3.56 (m, 1H), 1.51-1.47 (m, 2H), 1.21-1.07 (m, 10H), 0.83-0.80(m, J=10Hz, 3H). MS found 923.4 [M+Na]+, calcd for [C42H44O22=900.2]. [0358] Example 11— Preparation of COMPOUND NO.17 [0359] COMPOUND NO.17 was prepared in accordance with General Scheme A.3. 1H NMR (500 MHz, Acetone) δ 8.14 (br, 21H), 7.29 (s, 2H), 7.17 (s, 2H), 7.03 (s, 4H), 6.97 (s, 2H), 6.95 (s, 2H), 6.90 (s, 2H), 5.95 (t, J=10Hz, 1H), 5.70(d, J=5 Hz, 1H), 5.64 (t, J=10 Hz, 1H), 5.58 (t, J=10 Hz, 1H), 5.16 (dd, J=10 Hz, 12.5Hz, 1H), 5.01 (dd, J=5Hz, 10 Hz, 1H), 4.92 (d, J=10 Hz, 1H), 4.84-4.80 (m, 1H), 4.77-4.74 (m, 1H), 4.50(t, J=5 Hz, 1H), 4.36-4.30 (m, 1H), 4.31-4.22(m, 3H), 3.82-3.78 (m, 1H), 3.54-3.49 (m, 1H), 1.51-1.48 (m, 2H), 1.4-1.17 (m, 18H), 0.90-0.85(m, J=10Hz, 3H). MS found 1597.6 [M+Na]+, calcd for [C73H74O39=1574.4]. [0360] Example 12— Preparation of COMPOUND NO.19 [0361] COMPOUND NO.19 was prepared in accordance with General Scheme A.4.1H NMR (500 MHz, DMSO-d6) δ 8.99 (s, 8H), 8.64 (s, 2H), 8.38 (s, 2H), 8.15 (s, 2H), 6.79 (s, 4H), 6.28 (s, 4H), 3.72 – 3.37 (m, 8H), 3.26 (s, 3H), 3.17 (s, 2H). MS (ESI): calcd. for C34H34N4O16 [M-H]- 753.2, found 753.3. [0362] Example 13— Preparation of COMPOUND NO.20 [0363] COMPOUND NO.20 was prepared in accordance with General Scheme A.4.1H NMR (500 MHz, DMSO-d6) δ 9.02 (d, J = 15.7 Hz, 6H), 8.66 (s, 2H), 8.41 (s, 1H), 8.18 (s, 1H), 6.81 (s, 4H), 6.29 (s, 2H), 4.09 (q, J = 5.2 Hz, 1H), 3.64 – 3.38 (m, 6H), 3.17 (d, J = 4.9 Hz, 4H), 2.89 (s, 1H), 2.73 (s, 1H), 2.69 (s, 1H), 2.42 – 2.10 (m, 4H). MS (ESI): calcd. for C31H37N5O12 [M-H]- 670.2, found 670.6. [0364] Example 14— Preparation of COMPOUND NO.21 [0365] COMPOUND NO.21 was prepared in accordance with General Scheme A.4. 1H NMR (500 MHz, DMSO-d6) δ 9.08 – 8.86 (m, 11H), 8.66 (s, 2H), 8.40 (s, 3H), 8.16 (s, 10H), 6.78 (s, 4H), 6.28 (d, J = 25.9 Hz, 6H), 3.13 (qd, J = 7.4, 4.0 Hz, 21H). MS (ESI): calcd. for C43H43N5O20 [M-H]- 948.2, found 948.3. [0366] Example 15— Preparation of COMPOUND NO.22 [0367] COMPOUND NO.22 was prepared in accordance with General Scheme A.4. 1H NMR (500 MHz, DMSO-d6) δ 8.98 (d, J = 5.6 Hz, 6H), 8.62 (s, 2H), 8.38 (s, 1H), 8.15 (s, 3H), 6.79 (s, 4H), 6.31 (s, 2H), 3.17 (d, J = 5.2 Hz, 7H), 2.69 (s, 3H). MS (ESI): calcd. for C25H25N3O12 [M- H]- 558.1, found 558.3. [0368] Example 16— Preparation of COMPOUND NO.24 [0369] COMPOUND NO.24 was prepared in accordance with General Scheme A.4. 1H NMR (500 MHz, DMSO) δ 9.19-9.17 (br, 10H), 8.89-8.87 (br, 5H), 6.94 (s, 10H), 4.96 (br, 10H), 2.61-2.49(m, 10H), 1.75-1.42 (m, 8H), 1.25-1.19 (m, 10H), 0.91-0.81(m, 10H), 0.69-0.67 (m, 15H). MS found 1294.6 [M+Na]+, calcd for [C64H83N3O25=1293.5]. [0370] Example 17— Preparation of COMPOUND NO.25 [0371] COMPOUND NO.25 was prepared in accordance with General Scheme A.4. 1H NMR (500 MHz, DMSO-d6) δ 8.80 (d, J = 156.1 Hz, 6H), 8.08 (t, J = 5.5 Hz, 2H), 6.79 (s, 4H), 3.19 (dd, J = 13.2, 7.1 Hz, 5H), 2.48 – 2.20 (m, 10H), 1.62 (p, J = 6.9 Hz, 4H). MS (ESI): calcd. for C24H32N4O8 [M+H]+ 505.2, found 505.1. [0372] Example 18— Preparation of COMPOUND NO.29 [0373] COMPOUND NO.29 was prepared in accordance with General Scheme A.5. Off-white solid, 71 mg, yield 40%; MS (EI): calcd. for C65H78O25Na: 1281.4 [M+Na]; found: 1281. [0374] Example 19— Preparation of COMPOUND NO.33 [0375] COMPOUND NO.33 was prepared in accordance with General Scheme A.6. 1H NMR (499 MHz, Acetone) δ 8.17 (br, 15H), 7.24 – 6.95 (m, 10H), 5.99-5.59 (m, 4H), 4.74-4.39 (m, 5H), 2.77 – 2.52 (m, 4H), 2.21 – 1.45 (m, 10H), 1.42 – 0.82 (m, 36H); MS (EI): calcd. for C72H84O29Na: 1435.5 [M+Na]; found: 1435.9. [0376] Example 20— Preparation of COMPOUND NO.39 [0377] COMPOUND NO.39 was prepared in accordance with General Scheme A.7. MS (ES): m/z calcd for C70H88O26Na (M+Na), 1367; found, 1367. [0378] Example 21— Preparation of COMPOUND NO.43 [0379] COMPOUND NO.43 was prepared in accordance with General Scheme A.8. MS (ES): m/z calcd for C118H164O54 (M+H), 2418; found, 2418. Example 22- Preparation of LNPs Comprising DNA and In Vivo Screening [0380] The following is a nonlimiting example that provides exemplary methods for formulating a plurality of multi-component LNP compositions comprising a compound of Formula (I) and DNA. [0381] To formulate the LNPs, the cationic lipid COMPOUND NO.37, the phospholipid DOPC, the structural lipid cholesterol (Chol), 1,2-dimyristoyl-sn-glycerol methoxypolyethylene glycol (DMG-PEG2000; Avanti Polar Lipids, Alabaster, Alabama, USA), and Tri-GalNac-PEG2000- DSPE (“GalNac-PEG”) were combined to prepare LNP compositions. [0382] Individual 25 mg/ml lipid stock solutions and 20 mg/mL additive stock comprising a compound of Formula (I) were prepared by solubilizing the lipids in 200-proof HPLC-grade ethanol and stock solutions were stored at -80° C until formulated. At the time of formulation, the lipid and additive stock solutions were briefly allowed to equilibrate to room temp and then placed on a hot plate maintained at a temperature range of 45-55oC. Subsequently, the hot lipid and additive stock solutions were combined to yield desired final mol percentages and allowed to cool down to room temperature. [0383] A 1 mg/ml solution of the desired DNA to be incorporated into the LNPs was added to 150 mM sodium acetate buffer (pH 5.2) to form a stock solution and kept on ice. The ethanol phase was vigorously mixed with the nucleic acid in sodium acetate phase using the Precision Nanoassemblr instrument. [0384] The resultant LNP compositions were then transferred to a Repligen Float-A-Lyzer dialysis device- having a molecular weight cut off (MWCO) of 8-10kDa (Spectrum Chemical Mfg. Corp, CA, USA) and processed by dialysis against phosphate buffered saline (PBS) (dialysate : dialysis buffer volume at least 1:200 v/v), pH 7.4 overnight at 4oC (or alternatively room temperature for at least 4 hours), to remove the 25% ethanol and achieve a complete buffer exchange. In some experiments the LNPs were further concentrated by in an Amicon® Ultra-4 centrifugal filter unit, MWCO-30kDa (Millipore Sigma, USA) spun at ~4100 x g in an ultracentrifuge. The LNPs were then stored at 4oC until further use. Example 23 - LNP compositions comprising compounds of Formula (I) enhance delivery of DNA to liver cells in vivo [0385] This experiment shows the ability of LNP compositions of the present disclosure that comprise at least one compound of Formula (I) to enhance delivery of DNA to liver cells in vivo. [0386] A series of LNP compositions of the present disclosure were prepared comprising the following components at the following % moles: COMPOUND NO.37 (50% moles): DOPC (10% moles): cholesterol (38.5% moles): PEG-DMG (1% moles): GalNac-PEG (0.5% moles) and lipid:DNA (w/w) of 60:1. Additionally, each LNP composition comprised a compound of Formula (I) at varying compound:DNA weight ratios (5, 10, 12.5) and a DNA nanoplasmid encoding the fluc gene operably associated with the constitutive CMV promoter. One LNP composition was prepared without adding a compound of Formula (I). The compositions of the LNP compositions are listed in Table 4. Table 4 [0387] In this experiment, each group of adult female BALB/C mice (n=3/group) was intravenously administered via tail vein injection a DNA nanoplasmid encoding the fluc gene operably associated with the constitutive CMV promoter. The DNA molecules were formulated within LNP compositions of the present disclosure as described in Table 4. The LNP compositions of the present disclosure (0.5 mg/kg) were administered to the mice from each of the groups. One group of mice was treated with vehicle (PBS, Thermo Fisher Scientific, USA) as a negative control. [0388] Luciferase expression was measured by whole body luminescence imaging (BLI) of anesthetized mice at 48 hours post-administration using an IVIS Lumina in vivo imaging system (Perkin Elmer) according to the manufacturer’s instructions. Briefly, mice were anesthetized using isoflurane in oxygen, and placed supine on a heated stage. Mice were then administered D- luciferin (Perkin-Elmer #122799) IP, and BLI was performed. [0389] The results of BLI measurements (total flux [p/s]) are shown in FIG.1. As shown in FIG.1, the addition of at least one compound of Formula (I) to the LNP composition resulted in an increase in BLI of up to about 30- to 50-fold (A.7, A.10, A.4) compared to the LNP composition lacking an additive (A.1). Example 24 – LNP compositions comprising compounds of Formula (I) enhance delivery of co-encapsulated DNA and RNA to liver cells in vivo [0390] This experiment shows the ability of LNP compositions of the present disclosure that comprise COMPOUND NO.9 of Formula (I) to enhance delivery of co-encapsulated DNA and RNA to liver cells in vivo. [0391] In this experiment, FVIII expression indicates successful delivery by LNP compositions of a two-component, DNA/RNA system to liver cells, resulting in transposition of the FVIII transgene facilitated by SPB. [0392] Wild-type C57BL/6 adult mice (N=4) were dosed with a single co-encapsulated LNP encapsulating both FVIII transposon and SPB. The compositions of the co-encapsulated LNPs are shown in Table 5, incorporating mRNA encoding active SPB and TTR-FVIII nanoplasmid DNA (SEQ ID NO: 9). All cytidine residues in the mRNA were 5-methylcytidine (5-MeC). Table 5 [0393] Each group of mice received either 0.5 mg/kg or 0.75 mg/kg of co-encapsulated LNP encapsulating mRNA and DNA at a 1:2 mRNA:DNA ratio. One group of mice was treated with vehicle (PBS, Thermo Fisher Scientific, USA) as a negative control. [0394] Prior to administration, mice were placed under anesthesia induced by isoflurane. For delivery, 50-80µL of co-encapsulated LNP was drawn into a single 29 gauge insulin syringe, and delivered via intravenous (IV) through the retro-orbital sinus. On Day 6 post-treatment, plasma was collected from treated mice. For plasma collection, treated mice were put under anesthesia with isoflurane, approximately 150µL whole blood was retro-orbitally collected, whole blood was mixed with 10% volume of 3.2% sodium citrate, centrifuged at 15,000g for 15 minutes at 20°C, and plasma supernatant was collected. hFVIII antigen levels were measured using the VisualizeTM Factor VIII Antigen Plus Kit (Affinity BiologicalsTM Inc.). [0395] The results of FVIII antigen expression are shown in Table 6. Table 6 [0396] As shown in Table 6, the addition of COMPOUND NO.9 to the LNP composition resulted in an increase in FVIII antigen expression of about 1.5-fold to about 12-fold compared to the LNP composition lacking COMPOUND NO.9, depending on composition and dose (compare B.2 to B.1, B.4 to B.3, B.6 to B.5, and B.8 to B.7). Example 25 - LNP compositions comprising compounds of Formula (I) enhance delivery of DNA to liver cells in vivo [0397] This experiment shows the ability of LNP compositions of the present disclosure that comprise at least one compound of Formula (I) to enhance delivery of DNA to liver cells in vivo. [0398] A series of LNP compositions of the present disclosure were prepared comprising the following components at the following % moles: COMPOUND NO.37 (50% moles): DOPC (10% moles): cholesterol (38.5% moles): PEG-DMG (1% moles): GalNac-PEG (0.5% moles) and lipid:DNA (w/w) of 60:1. Additionally, each LNP composition comprised a compound of Formula (I) at varying compound:DNA weight ratios (5, 10, 12.5) and a DNA nanoplasmid encoding the fluc gene operably associated with the constitutive CMV promoter. One LNP composition was prepared without adding a compound of Formula (I). The compositions of the LNP compositions are listed in Table 7. Table 7 [0399] In this experiment, each group of adult female BALB/C mice (n=3/group) was intravenously administered via tail vein injection a DNA nanoplasmid encoding the fluc gene operably associated with the constitutive CMV promoter. The DNA molecules were formulated within LNP compositions of the present disclosure as described in Table 7. The LNP compositions of the present disclosure (0.5 mg/kg) were administered to the mice from each of the groups. One group of mice was treated with vehicle (PBS, Thermo Fisher Scientific, USA) as a negative control. [0400] Luciferase expression was measured by whole body luminescence imaging (BLI) of anesthetized mice at 48 hours post-administration using an IVIS Lumina in vivo imaging system (Perkin Elmer) according to the manufacturer’s instructions. Briefly, mice were anesthetized using isoflurane in oxygen, and placed supine on a heated stage. Mice were then administered D- luciferin (Perkin-Elmer #122799) IP, and BLI was performed. [0401] The results of BLI measurements (total flux [p/s]) are shown in FIG.2. As shown in FIG.2, the addition of at least one compound of Formula (I) to the LNP composition resulted in an increase in BLI of up to about 10-fold (C.16) compared to the LNP composition lacking an additive (C.19). Example 26 - LNP compositions comprising compounds of Formula (I) enhance delivery of DNA to liver cells in vivo [0402] This experiment shows the ability of LNP compositions of the present disclosure that comprise at least one compound of Formula (I) to enhance delivery of DNA to liver cells in vivo. [0403] A series of LNP compositions of the present disclosure were prepared comprising the following components at the following % moles: COMPOUND NO.37 (50% moles): DOPC (10% moles): cholesterol (38.5% moles): PEG-DMG (1% moles): GalNac-PEG (0.5% moles) and lipid:DNA (w/w) of 60:1. Additionally, each LNP composition comprised a compound of Formula (I) at varying compound:DNA weight ratios (5 or 10) and a DNA nanoplasmid encoding the fluc gene operably associated with the constitutive CMV promoter. One LNP composition was prepared without adding a compound of Formula (I). Another group of mice was treated with a benchmark LNP composition comprising pentagalloylglucose, a polyphenol additive shown to enhance delivery of DNA to liver cells in vivo, as described in co-pending U.S. Patent Application No.63/678,021. The compositions of the LNP compositions are listed in Table 8. Table 8 [0404] In this experiment, each group of adult female BALB/C mice (n=3/group) was intravenously administered via tail vein injection a DNA nanoplasmid encoding the fluc gene operably associated with the constitutive CMV promoter. The DNA molecules were formulated within LNP compositions of the present disclosure as described in Table 8. The LNP compositions of the present disclosure (0.5 mg/kg) were administered to the mice from each of the groups. One group of mice was treated with vehicle (PBS, Thermo Fisher Scientific, USA) as a negative control. [0405] Luciferase expression was measured by whole body luminescence imaging (BLI) of anesthetized mice at 48 hours post-administration using an IVIS Lumina in vivo imaging system (Perkin Elmer) according to the manufacturer’s instructions. Briefly, mice were anesthetized using isoflurane in oxygen, and placed supine on a heated stage. Mice were then administered D- luciferin (Perkin-Elmer #122799) IP, and BLI was performed. [0406] The results of BLI measurements (total flux [p/s]) are shown in Table 9. As shown in Table 9, the addition of a compound of Formula (I) to the LNP composition resulted in an increase in BLI of up to about 80-fold (D.1) compared to the LNP composition lacking an additive (D.3). Notably, the LNP composition comprising the compound of Formula (I) showed higher potency at the lower compound of Formula (I) to DNA ratio (compare D1, 5:1 ratio to D2, 10:1 ratio). Moreover, the LNP composition at the lowest compound of Formula (I) to DNA ratio (D1, 5:1 ratio) showed a comparable or even slightly higher potency than the benchmark LNP composition, comprising a benchmark polyphenol additive at an additive:DNA ratio of 12.5:1. Table 9 Example 27 - LNP compositions comprising compounds of Formula (I) enhance delivery of DNA to liver cells in vivo [0407] This experiment shows the ability of LNP compositions of the present disclosure that comprise at least one compound of Formula (I) to enhance delivery of DNA to liver cells in vivo. [0408] A series of LNP compositions of the present disclosure were prepared. Each LNP composition comprised a compound of Formula (I) and varying GalNac (% moles). The compositions of the LNP compositions are listed in Table 10. Table 10 [0409] In this experiment, each group of adult female BALB/C mice (n=3/group) was intravenously administered via tail vein injection a DNA nanoplasmid encoding the fluc gene operably associated with the constitutive CMV promoter. The DNA molecules were formulated within LNP compositions of the present disclosure as described in Table 10. The LNP compositions of the present disclosure (0.5 mg/kg) were administered to the mice from each of the groups. One group of mice was treated with vehicle (PBS, Thermo Fisher Scientific, USA) as a negative control. [0410] Luciferase expression was measured by whole body luminescence imaging (BLI) of anesthetized mice at 48 hours post-administration using an IVIS Lumina in vivo imaging system (Perkin Elmer) according to the manufacturer’s instructions. Briefly, mice were anesthetized using isoflurane in oxygen, and placed supine on a heated stage. Mice were then administered D- luciferin (Perkin-Elmer #122799) IP, and BLI was performed. [0411] The results of BLI measurements (total flux [p/s]) are shown in Table 11. As shown in Table 11, decreasing GalNac mol% resulted in increasing potency (compare, for example E.1 with 0 mol% GalNac to E.6 with 0.5 mol% GalNac). Table 11 [0412] In a separate experiment, a series of LNP compositions of the present disclosure were prepared. Each LNP composition comprised a compound of Formula (I) and either GalNac or DSPE-mPEG2k. The compositions of the LNP compositions are listed in Table 12. Table 12 [0413] In this experiment, each group of adult female BALB/C mice (n=3/group) was intravenously administered via tail vein injection a DNA nanoplasmid encoding the fluc gene operably associated with the constitutive CMV promoter. The DNA molecules were formulated within LNP compositions of the present disclosure as described in Table 12. The LNP compositions of the present disclosure were administered to the mice from each of the groups (0.5 mg/kg for the LNP compositions comprising DSPE-mPEG2k or 0.5 mg/kg, 0.25 mg/kg, or 0.1 mg/kg for the LNP composition comprising GalNac). One group of mice was treated with vehicle (PBS, Thermo Fisher Scientific, USA) as a negative control. [0414] Whole body BLI measurements were taken as described previously and the results (total flux [p/s]) are shown in Table 13. As shown in Table 13, LNP compositions comprising DSPE- mPEG2k showed increasing potency with decreasing DSPE-mPEG2k mol% (compare, for example F.2 with F.4). Additionally, delivery of DNA by the LNP composition comprising GalNac (F.5) showed dose dependency, with higher potency at the higher dose (0.5 mg/kg), and slightly lower potency at the lower doses (0.25 mg/kg and 0.1 mg/kg). Table 13 [0415] While the invention has been described in connection with specific embodiments thereof, it will be understood that it is capable of further modifications and this application is intended to cover any variations, uses, or adaptations of the invention following, in general, the principles of the invention and including such departures from the present disclosure as come within known or customary practice within the art to which the invention pertains and as may be applied to the essential features hereinbefore set forth, and as follows in the scope of the appended claims.

Claims

What is claimed is: 1. A compound of Formula (I): Formula (I) or a salt thereof, wherein: A is:
, , , , , , or ; each B is independently or in which * indicates attachment to A and ** indicates attachment to C, each C is independently , C6 – C18 alkyl, or , each X is independently O, NH, or absent, each y is independently an integer ranging from 0 to 3, each R1 is independently C1 – C10 alkyl or absent, m is an integer ranging from 4 to 7; n is an integer ranging from 3 to 8, and p is an integer ranging from 5 to 8, and wherein when A is , , , or , at least one occurrence of C is C6 – C18 alkyl or and
wherein when A is and m is 4, at least one occurrence of C is .
2. The compound of claim 1, wherein each X is independently O.
3. The compound of claim 1, wherein each X is independently NH.
4. The compound of claim 1, wherein each X is independently NH or absent.
5. The compound of claim 1, wherein each B is independently .
6. The compound of claim 1, wherein each B is independently or .
7. The compound of claim 1, wherein each B is independently .
8. The compound of claim 1, wherein each B is independently or .
O ** *
9. The compound of claim 1, wherein each B is independently R1 O .
10. The compound of claim 1, wherein each B is independently .
11. The compound of any one of the preceding claims, wherein A is .
12. The compound of any one of the preceding claims, wherein A is selected from: , , , , or .
13. The compound of any one of the preceding claims, wherein each C is independently .
14. The compound of any one of the preceding claims, wherein A is and each C is independently or C6 – C18 alkyl, wherein at least one occurrence of C is C6 – C18 alkyl.
15. The compound of any one of the preceding claims, wherein A is and each C is independently or , wherein at least one occurrence of C is .
16. The compound of any one of the preceding claims, wherein A is and each C is independently or C6 – C18 alkyl, wherein at least one occurrence of C is C6 – C18 alkyl.
O O O 17. The compound of any one of the preceding claims, wherein A is and each C is independently or , wherein at least one occurrence of C is .
18. A compound selected from:
, , , , , , ,
, , , ,
, , or
.
19. A composition comprising at least one lipid nanoparticle, wherein the at least one nanoparticle comprises at least one compound of Formula (I): Formula (I) or a salt thereof, wherein: A is:
, , , , , , , , , , , , or ; * X ** y each B is independently R1 O or in which * indicates attachment to A and ** indicates attachment to C, each C is independently , C6 – C18 alkyl, or , each X is independently O, NH, or absent, each y is independently an integer ranging from 0 to 3, each R1 is independently C1 – C10 alkyl or absent, m is an integer ranging from 4 to 7; n is an integer ranging from 3 to 8, and p is an integer ranging from 5 to 8,
wherein when A is , at least one occurrence of C is C6 – C18 alkyl or , and wherein when A is and m is 4, at least one occurrence of C is .
20. The composition of claim 19, wherein the at least one lipid nanoparticle further comprises: at least one cationic lipid, at least one structural lipid, at least one phospholipid, at least one PEGylated lipid, and at least one nucleic acid molecule.
21. The composition of claim 20, wherein the at least one cationic lipid is COMPOUND NO. 33 which has the following structure:
22. The composition of claim 20, wherein the at least one cationic lipid is COMPOUND NO.37 which has the following structure: .
23. The composition of any one of claims 20-22, wherein the at least one structural lipid is cholesterol, the at least one phospholipid is DOPC, and the at least one PEGylated lipid is DMG- PEG2000.
24. The composition according to any one of claims 19-23, wherein the at least one nucleic acid molecule comprises at least one RNA molecule and/or at least one DNA molecule.
25. The composition according to any one of claims 19-24, wherein the DNA molecule is a circular DNA molecule, DoggyBone® DNA molecule, a DNA plasmid, a DNA nanoplasmid, or a linearized DNA molecule.
26. The composition according to any one of claims 19-25, wherein the at least one DNA molecule comprises a nucleic acid sequence encoding at least one transposon.
27. The composition of any one of claims 19-26, wherein the at least one DNA molecule comprises a nucleic acid sequence encoding at least one therapeutic protein.
28. The composition of any one of claims 19-27, wherein the at least one DNA molecule comprises a nucleic acid sequence encoding at least one transposon, wherein the transposon comprises a nucleic acid sequence encoding at least one therapeutic protein.
29. The composition of any one of claims 19-28, wherein the RNA molecule is an mRNA molecule, preferably wherein the mRNA molecule further comprises a 5’-CAP.
30. The composition of any one of claims 19-29, wherein the at least one RNA molecule comprises a nucleic acid sequence encoding at least one transposase, preferably wherein the transposase is a piggyBac™ (PB) transposase, a piggyBac-like (PBL) transposase, a Super piggyBac™ (SPB) transposase polypeptide, a Sleeping Beauty transposase, a Hyperactive Sleeping Beauty (SB100X) transposase, a helitron transposase, a Tol2 transposase, a TcBuster transposase or a mutant TcBuster transposase.
31. The composition of any one of claims 19-30, wherein the at least one RNA molecule comprises a nucleic acid sequence encoding a fusion protein, wherein the fusion protein comprises (i) an inactivated Cas9 (dCas9) protein or an inactivated nuclease domain thereof, (ii) a Clo051 protein or a nuclease domain thereof, wherein the composition further comprises at least one guide RNA molecule.
32. A pharmaceutical composition, comprising a composition of any of claims 19-31 and at least one pharmaceutically-acceptable excipient or diluent.
33. A method of delivering at least one nucleic molecule to at least one cell comprising contacting the at least one cell with at least one composition of any one of claims 19-32.
34. A method of genetically modifying at least one cell comprising contacting the at least one cell with at least one composition of any one of claims 19-32.
35. The method of claims 33 or 34, wherein the at least one cell is a liver cell.
36. The method of claim 35, wherein the liver cell is a hepatocyte, a hepatic stellate cell, Kupffer cell or liver sinusoidal endothelial cell.
37. At least one cell modified according to the method of any one of claims 33-36.
38. A method of treating at least one disease or disorder in a subject in need thereof comprising administering to the subject at least one therapeutically effective amount of the composition of any one of claims 19-32 or the at least one cell of claim 37.
39. The method of claim 38, wherein the at least one disease or disorder is a liver disease or disorder.
PCT/US2025/039918 2024-07-31 2025-07-30 Trihydroxybenzene-containing compounds, compositions comprising trihydroxybenzene-containing compounds and related uses Pending WO2026030470A1 (en)

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US63/677,966 2024-07-31
US202463684270P 2024-08-16 2024-08-16
US63/684,270 2024-08-16
US202563768744P 2025-03-07 2025-03-07
US63/768,744 2025-03-07

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