2 articles published in JoVE
Identification of Enhancer-Promoter Contacts in Embryoid Bodies by Quantitative Chromosome Conformation Capture (4C) Tian V. Tian1,2,3, Enrique Vidal1,2, Thomas Graf1,2, Grégoire Stik1,2 1Center for Genomic Regulation (CRG), The Barcelona Institute of Science and Technology, 2Universitat Pompeu Fabra, 3 We report the application of quantitative chromosome conformation capture followed by high-throughput sequencing in embryoid bodies generated from embryonic stem cells. This technique allows to identify and quantitate the contacts between putative enhancers and promoter regions of a given gene during embryonic stem cell differentiation.
Genome-wide Analysis using ChIP to Identify Isoform-specific Gene Targets Michael L. Beshiri1, Abul Islam2, Dannielle C. DeWaal1, William F. Richter1, Jennifer Love3, Nuria Lopez-Bigas2, Elizaveta V. Benevolenskaya1 1Department of Biochemistry and Molecular Genetics, University of Illinois Chicago - UIC, 2Research Unit on Biomedical Informatics, Universitat Pompeu Fabra, 3Genome Technology Core, Whitehead Institute for Biomedical Research Here we are presenting a chromatin immunoprecipitation (ChIP) procedure for genome-wide location analysis of protein isoforms that differ in a histone-binding domain. We are applying it to ChIP-Seq analysis to identify the targets of the KDM5A/JARID1A/RBP2 histone demethylase.