References
- Cong L, Ran FA, Cox D, et al. Multiplex genome engineering using CRISPR/Cas systems. Science. 2013;339(6121):819–823.
- Chavez A, Scheiman J, Vora S, et al. Highly efficient Cas9- mediated transcriptional programming. Nat Methods. 2015;12(4):326–328.
- Gilbert LA, Larson MH, Morsut L, et al. CRISPR-mediated modular RNA-guided regulation of transcription in eukaryotes. Cell. 2013;154(2):442–451.
- Hilton IB, D’Ippolito AM, Vockley CM, et al. Epigenome editing by a CRISPR-Cas9-based acetyltransferase activates genes from promoters and enhancers. Nat Biotechnol. 2015;33(5):510–517.
- Holtzman L, Gersbach CA. Editing the epigenome: reshaping the genomic landscape. Annu Rev Genomics Hum Genet. 2018;19:43–71.
- Joung J, Konermann S, Gootenberg JS, et al. Genome-scale CRISPR-Cas9 knockout and transcriptional activation screening. Nat Protoc. 2017;12(4):828–863.
- Klann TS, Black JB, Chellappan M, et al. CRISPR-Cas9 epigenome editing enables high-throughput screening for functional regulatory elements in the human genome. Nat Biotechnol. 2017;35(6):561–568.
- Komor AC, Badran AH, Liu DR. CRISPR-based technologies for the manipulation of eukaryotic genomes. Cell. 2017;168(1–2):20–36.
- Park M, Keung AJ, Khalil AS. The epigenome: the next substrate for engineering. Genome Biol. 2016;17(1):183.
- Pulecio J, Verma N, Mejia-Ramirez E, et al. CRISPR/Cas9-based engineering of the epigenome. Cell Stem Cell. 2017;21(4):431–447.
- Thakore PI, Black JB, Hilton IB, et al. Editing the epigenome: technologies for programmable transcription and epigenetic modulation. Nat Methods. 2016;13(2):127–137.
- Thakore PI, D’Ippolito AM, Song L, et al. Highly specific epigenome editing by CRISPR-Cas9 repressors for silencing of distal regulatory elements. Nat Methods. 2015;12(12):1143–1149.
- Brocken DJW, Tark-Dame M, Dame RT. dCas9: a Versatile Tool for Epigenome Editing. Curr Issues Mol Biol. 2018;26:15–32.
- Adli M. The CRISPR tool kit for genome editing and beyond. Nat Commun. 2018;9(1):1911.
- O’Geen H, Ren C, Nicolet CM, et al. dCas9-based epigenome editing suggests acquisition of histone methylation is not sufficient for target gene repression. Nucleic Acids Res. 2017;45(17):9901–9916.
- Tanenbaum ME, Gilbert LA, Qi LS, et al. A protein-tagging system for signal amplification in gene expression and fluorescence imaging. Cell. 2014;159(3):46–635.
- Morita S, Noguchi H, Horii T, et al. Targeted DNA demethylation in vivo using dCas9-peptide repeat and scFv-TET1 catalytic domain fusions. Nat Biotechnol. 2016;34(10):1060–1065.
- Huang YH, Su J, Lei Y, et al. DNA epigenome editing using CRISPR-Cas SunTag-directed DNMT3A. Genome Biol. 2017;18:176.
- Pflueger C, Tan D, Swain T, et al. A modular dCas9-SunTag DNMT3A epigenome editing system overcomes pervasive off-target activity of direct fusion dCas9-DNMT3A constructs. Genome Res. 2018 Aug;28(8):1193–1206. Epub 2018 Jun 15.
- Cleries R, Galvez J, Espino M, et al. BootstRatio: a web- based statistical analysis of fold-change in qPCR and RT-qPCR data using resampling methods. Comput Biol Med. 2012;42(4):438–445.
- Disease registry statistical tools - bootstratio. Accessed1/4/2020. Available from: http://pdo.iconcologia.net/stats/br/index.html.
- Guhathakurta S, Kim J, Adams L, et al. Targeted attenuation of elevated histone marks at SNCA alleviates α-synuclein in Parkinson’s disease. EMBO Mol Med. 2021;13(2). DOI:10.15252/emmm.202012188
- Eckner R, Ewen ME, Newsome D, et al. Molecular cloning and functional analysis of the adenovirus E1A-associated 300-kD protein(p300) reveals a protein with properties of a transcriptional adaptor. Genes Dev. 1994;8(8):84–869.
- Wang L, Tang Y, Cole PA, et al. Structure and chemistry of the p300/CBP and Rtt109 histone acetyltransferases: implications for histone acetyltransferase evolution and function. Curr Opin Struct Biol. 2008;18(6):741–747.
- Vv O, RL S, Russanova V, et al. The transcriptional coactivators p300 and CBP are histone acetyltransferases. Cell. 1996;87(5):953–959.
- Clayton AL, Hazzalin CA, Mahadevan LC. Enhanced histone acetylation and transcription: a dynamic perspective. Mol Cell. 2006;23(3):289–296.
- Koyanagi M, Baguet A, Martens J, et al. EZH2 and histone 3 trimethyl lysine 27 associated with Il4 and Il13 gene silencing in Th1 cells. J Biol Chem. 2005;280(36):31470–31477.
- Vire E, Brenner C, Deplus R, et al. The polycomb group protein EZH2 directly controls DNA methylation. Nature. 2006;439(7078):871–874.
- Cao R, Wang L, Wang H, et al. Role of histone H3 lysine 27 methylation in Polycomb-group silencing. Science. 2002;298(5595):1039–1043.
- Zhang X, Liu L, Yuan X, et al. JMJD3 in the regulation of human diseases. Protein Cell. 2019;10(12):864–882.
- Burchfield JS, Li Q, Wang HY, et al. JMJD3 as an epigenetic regulator in development and disease. Int J Biochem Cell Biol. 2015;67:148–157.
- DiTacchio L, Le HD, Vollmers C, et al. Histone lysine demethylase JARID1a activates CLOCK-BMAL1 and influences the circadian clock. Science. 2011;333(6051):1881–1885.
- Paigen K, Petkov PM. PRDM9 and its role in genetic recombination. Trends Genet. 2018;34(4):291–300.
- Consortium EP. An integrated encyclopedia of DNA elements in the human genome. Nature. 2012;489(7414):57–74.
- Davis CA, Hitz BC, Sloan CA, et al. The Encyclopedia of DNA elements (ENCODE): data portal update. Nucleic Acids Res. 2018;46(D1):D794–D801.