Role of ChIP-seq in the discovery of transcription factor binding sites, differential gene regulation mechanism, epigenetic marks and beyond

dc.contributor.authorMundade, Rasika
dc.contributor.authorOzer, Hatice Gulcin
dc.contributor.authorWei, Han
dc.contributor.authorPrabhu, Lakshmi
dc.contributor.authorLu, Tao
dc.contributor.departmentDepartment of Pharmacology and Toxicology, IU School of Medicineen_US
dc.date.accessioned2016-10-20T16:31:04Z
dc.date.available2016-10-20T16:31:04Z
dc.date.issued2014
dc.description.abstractMany biologically significant processes, such as cell differentiation and cell cycle progression, gene transcription and DNA replication, chromosome stability and epigenetic silencing etc. depend on the crucial interactions between cellular proteins and DNA. Chromatin immunoprecipitation (ChIP) is an important experimental technique for studying interactions between specific proteins and DNA in the cell and determining their localization on a specific genomic locus. In recent years, the combination of ChIP with second generation DNA-sequencing technology (ChIP-seq) allows precise genomic functional assay. This review addresses the important applications of ChIP-seq with an emphasis on its role in genome-wide mapping of transcription factor binding sites, the revelation of underlying molecular mechanisms of differential gene regulation that are governed by specific transcription factors, and the identification of epigenetic marks. Furthermore, we also describe the ChIP-seq data analysis workflow and a perspective for the exciting potential advancement of ChIP-seq technology in the future.en_US
dc.eprint.versionFinal published versionen_US
dc.identifier.citationMundade, R., Ozer, H. G., Wei, H., Prabhu, L., & Lu, T. (2014). Role of ChIP-seq in the discovery of transcription factor binding sites, differential gene regulation mechanism, epigenetic marks and beyond. Cell Cycle, 13(18), 2847–2852. http://doi.org/10.4161/15384101.2014.949201en_US
dc.identifier.issn1551-4005en_US
dc.identifier.urihttps://hdl.handle.net/1805/11209
dc.language.isoen_USen_US
dc.publisherLandes Bioscienceen_US
dc.relation.isversionof10.4161/15384101.2014.949201en_US
dc.relation.journalCell Cycle (Georgetown, Tex.)en_US
dc.rightsAttribution-NonCommercial 3.0 United States
dc.rights.urihttp://creativecommons.org/licenses/by-nc/3.0/us/
dc.sourcePMCen_US
dc.subjectChromatin Immunoprecipitationen_US
dc.subjectmethodsen_US
dc.subjectEpigenesis, Geneticen_US
dc.subjectGene Expression Profilingen_US
dc.subjectSequence Analysis, DNAen_US
dc.subjectTranscription Factorsen_US
dc.subjectmetabolismen_US
dc.titleRole of ChIP-seq in the discovery of transcription factor binding sites, differential gene regulation mechanism, epigenetic marks and beyonden_US
dc.typeArticleen_US
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