標題: Factorbook.org: a Wiki-based database for transcription factor-binding data generated by the ENCODE consortium
作者: Wang, Jie
Zhuang, Jiali
Iyer, Sowmya
Lin, Xin-Ying
Greven, Melissa C.
Kim, Bong-Hyun
Moore, Jill
Pierce, Brian G.
Dong, Xianjun
Virgil, Daniel
Birney, Ewan
Hung, Jui-Hung
Weng, Zhiping
生物科技學系
生物資訊及系統生物研究所
Department of Biological Science and Technology
Institude of Bioinformatics and Systems Biology
公開日期: 1-一月-2013
摘要: The Encyclopedia of DNA Elements (ENCODE) consortium aims to identify all functional elements in the human genome including transcripts, transcriptional regulatory regions, along with their chromatin states and DNA methylation patterns. The ENCODE project generates data utilizing a variety of techniques that can enrich for regulatory regions, such as chromatin immunoprecipitation (ChIP), micrococcal nuclease (MNase) digestion and DNase I digestion, followed by deeply sequencing the resulting DNA. As part of the ENCODE project, we have developed a Web-accessible repository accessible at http://factorbook.org. In Wiki format, factorbook is a transcription factor (TF)-centric repository of all ENCODE ChIP-seq datasets on TF-binding regions, as well as the rich analysis results of these data. In the first release, factorbook contains 457 ChIP-seq datasets on 119 TFs in a number of human cell lines, the average profiles of histone modifications and nucleosome positioning around the TF-binding regions, sequence motifs enriched in the regions and the distance and orientation preferences between motif sites.
URI: http://dx.doi.org/10.1093/nar/gks1221
http://hdl.handle.net/11536/20798
ISSN: 0305-1048
DOI: 10.1093/nar/gks1221
期刊: NUCLEIC ACIDS RESEARCH
Volume: 41
Issue: D1
起始頁: D171
結束頁: D176
顯示於類別:期刊論文


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  1. 000312893300024.pdf