title: Global analysis of in vivo EGR1-binding sites in erythroleukemia cell using chromatin immunoprecipitation and massively parallel sequencing.
abstract: Early growth response gene 1 (EGR1) has been implicated in megakaryocyte differentiation induced by phorbol ester. But the molecule mechanism of EGR1 in this process has not been widely investigated. The identification of direct EGR1 target genes in a global scale is critical for our understanding of how EGR1 contributes to this process. In this study, we provide a global survey on the binding location of EGR1 in the K562 cells using chromatin immunoprecipitation and massively parallel sequencing. Over 14 000 highly confident in vivo EGR1 binding sites were identified in phorbol 12-myristate 13-acetate-treated K562 cells. More than 70% of these genomic sites associated with EGR1 binding were located around annotated gene regions. Molecular functional classification of 6138 putative EGR1 target genes showed that the transcription factor class (695 of 6138; 11%) is the largest significantly enriched one. The results showed that a high coverage of the genome and a high positive rate achieve were achieved. This whole genome study on the EGR1 targets may provide a better understanding of the EGR1 regulated genes and the downstream pathway in megakaryocyte differentiation.
authors.affiliation: School of Basic Medical Sciences, Southeast University, Nanjing, P. R. China.
authors.forename: Chao
authors.initials: C
authors.lastname: Tang
authors.forename: Xiaolong
authors.initials: X
authors.lastname: Shi
authors.forename: Wei
authors.initials: W
authors.lastname: Wang
authors.forename: Dequan
authors.initials: D
authors.lastname: Zhou
authors.forename: Jing
authors.initials: J
authors.lastname: Tu
authors.forename: Xueying
authors.initials: X
authors.lastname: Xie
authors.forename: Qinyu
authors.initials: Q
authors.lastname: Ge
authors.forename: Peng Feng
authors.initials: PF
authors.lastname: Xiao
authors.forename: Xiao
authors.initials: X
authors.lastname: Sun
authors.forename: Zuhong
authors.initials: Z
authors.lastname: Lu
mesh_terms: D045744:Cell Line, Tumor; D047369:Chromatin Immunoprecipitation / Q000379:methods*; D051766:Early Growth Response Protein 1 / Q000235:genetics* / Q000378:metabolism; D015973:Gene Expression Regulation, Leukemic / Q000235:genetics*; D053263:Gene Regulatory Networks / Q000235:genetics; D006801:Humans; D004915:Leukemia, Erythroblastic, Acute / Q000235:genetics* / Q000378:metabolism; D017422:Sequence Analysis, DNA / Q000379:methods*; D015398:Signal Transduction / Q000235:genetics; D013755:Tetradecanoylphorbol Acetate; D014157:Transcription Factors / Q000235:genetics / Q000378:metabolism
chemical_list: D051766:Early Growth Response Protein 1; D014157:Transcription Factors; D013755:Tetradecanoylphorbol Acetate