Cistrome: an integrative platform for transcriptional regulation studies
Tao Liu(Dana-Farber Cancer Institute), Jorge Ortíz(BGI Group (China)), Len Taing(Dana-Farber Cancer Institute), Clifford A. Meyer(Dana-Farber Cancer Institute), Bernett Lee(Singapore Immunology Network), Yong Zhang(Tongji University), Hyunjin Shin(Dana-Farber Cancer Institute), Swee Seong Wong(Eli Lilly (United States)), Jian Ma(Tongji University), Ying Lei(Stanford University), Utz Johann Pape(Dana-Farber Cancer Institute), Michael Poidinger(Singapore Immunology Network), Yiwen Chen(Dana-Farber Cancer Institute), Kevin Yeung(Raffles Institution), Myles Brown(Harvard University), Yaron Turpaz(AstraZeneca (United States)), X. Shirley Liu(Dana-Farber Cancer Institute)
Cited by 787Open Access
Abstract
The increasing volume of ChIP-chip and ChIP-seq data being generated creates a challenge for standard, integrative and reproducible bioinformatics data analysis platforms. We developed a web-based application called Cistrome, based on the Galaxy open source framework. In addition to the standard Galaxy functions, Cistrome has 29 ChIP-chip- and ChIP-seq-specific tools in three major categories, from preliminary peak calling and correlation analyses to downstream genome feature association, gene expression analyses, and motif discovery. Cistrome is available at http://cistrome.org/ap/.
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