| Comprehensive characterization of erythroid-specific enhancers in the genomic regions of human krüppel-like factors | |
| Xiong,Qian1,2; Zhang,Zhaojun1; Chang,Kai-Hsin3; Qu,Hongzhu1,4; Wang,Hai1,2,3; Qi,Heyuan1,2; Li,Yajuan1; Ruan,Xiuyan1; Yang,Yaran1; Yang,Yadong1 | |
| 刊名 | Bmc genomics
 |
| 2013-08-28 | |
| 卷号 | 14期号:1 |
| 关键词 | Dhs profiling High-throughput sequencing Erythroid Enhancer Krüppel-like factors |
| ISSN号 | 1471-2164 |
| DOI | 10.1186/1471-2164-14-587 |
| 通讯作者 | Stamatoyannopoulos,john a(jstam@u.washington.edu) ; Fang,xiangdong(fangxd@big.ac.cn) |
| 英文摘要 | Abstractbackgroundmapping of dnase i hypersensitive sites (dhss) is a powerful tool to experimentally identify cis-regulatory elements (cres). among cres, enhancers are abundant and predominantly act in driving cell-specific gene expression. krüppel-like factors (klfs) are a family of eukaryotic transcription factors. several klfs have been demonstrated to play important roles in hematopoiesis. however, transcriptional regulation of klfs via cres, particularly enhancers, in erythroid cells has been poorly understood.resultsin this study, 23 erythroid-specific or putative erythroid-specific dhss were identified by dnase-seq in the genomic regions of 17 human klfs, and their enhancer activities were evaluated using dual-luciferase reporter (dlr) assay. of the 23 erythroid-specific dhss, the enhancer activities of 15 dhss were comparable to that of the classical enhancer hs2 in driving minimal promoter (minp). fifteen dhss, some overlapping those that increased minp activities, acted as enhancers when driving the corresponding klf promoters (klf-ps) in erythroid cells; of these, 10 dhss were finally characterized as erythroid-specific klf enhancers. these 10 erythroid-specific klf enhancers were further confirmed using chromatin immunoprecipitation coupled to sequencing (chip-seq) data-based bioinformatic and biochemical analyses.conclusionour present findings provide a feasible strategy to extensively identify gene- and cell-specific enhancers from dhss obtained by high-throughput sequencing, which will help reveal the transcriptional regulation and biological functions of genes in some specific cells. |
| 语种 | 英语 |
| 出版者 | BioMed Central |
| WOS记录号 | BMC:10.1186/1471-2164-14-587 |
| 内容类型 | 期刊论文 |
| URI标识 | http://www.corc.org.cn/handle/1471x/2374296 |
| 专题 | 中国科学院大学 |
| 通讯作者 | Stamatoyannopoulos,John A; Fang,Xiangdong |
| 作者单位 | 1.Chinese Academy of Sciences; CAS Key Laboratory of Genome Sciences and Information, Beijing Institute of Genomics 2.University of Chinese Academy of Sciences 3.University of Washington; Division of Hematology, Department of Medicine 4.University of Washington; Department of Genome Sciences 5.University of Washington; Division of Medical Genetics, Department of Medicine |
| 推荐引用方式 GB/T 7714 | Xiong,Qian,Zhang,Zhaojun,Chang,Kai-Hsin,et al. Comprehensive characterization of erythroid-specific enhancers in the genomic regions of human krüppel-like factors[J]. Bmc genomics,2013,14(1). |
| APA | Xiong,Qian.,Zhang,Zhaojun.,Chang,Kai-Hsin.,Qu,Hongzhu.,Wang,Hai.,...&Fang,Xiangdong.(2013).Comprehensive characterization of erythroid-specific enhancers in the genomic regions of human krüppel-like factors.Bmc genomics,14(1). |
| MLA | Xiong,Qian,et al."Comprehensive characterization of erythroid-specific enhancers in the genomic regions of human krüppel-like factors".Bmc genomics 14.1(2013). |
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