Functional annotation of native enhancers with a Cas9-histone demethylase fusion
Diabetes Center of Excellence; Program in Molecular Medicine; Program in Bioinformatics and Integrative Biology
Animals; Bacterial Proteins; Caspase 9; Cells, Cultured; Embryonic Stem Cells; Enhancer Elements, Genetic; Gene Expression Regulation, Enzymologic; Genes, Reporter; Histone Demethylases; Histones; Mice; Neisseria meningitidis; Recombinant Proteins
Biochemistry, Biophysics, and Structural Biology | Bioinformatics | Computational Biology | Integrative Biology | Systems Biology
Understanding of mammalian enhancers is limited by the lack of a technology to rapidly and thoroughly test the cell type-specific function. Here, we use a nuclease-deficient Cas9 (dCas9)-histone demethylase fusion to functionally characterize previously described and new enhancer elements for their roles in the embryonic stem cell state. Further, we distinguish the mechanism of action of dCas9-LSD1 at enhancers from previous dCas9-effectors.
DOI of Published Version
Nat Methods. 2015 May;12(5):401-3. doi: 10.1038/nmeth.3325. Epub 2015 Mar 16. Link to article on publisher's site
Kearns NA, Pham H, Tabak B, Genga RM, Silverstein NJ, Garber M, Maehr R. (2015). Functional annotation of native enhancers with a Cas9-histone demethylase fusion. Program in Bioinformatics and Integrative Biology Publications. https://doi.org/10.1038/nmeth.3325. Retrieved from https://escholarship.umassmed.edu/bioinformatics_pubs/79