Cistrome: an integrative platform for transcriptional regulation studies

Genome Biology - Tập 12 - Trang 1-10 - 2011
Tao Liu1,2, Jorge A Ortiz3,4, Len Taing1,2, Clifford A Meyer1, Bernett Lee3,5, Yong Zhang6, Hyunjin Shin1,2, Swee S Wong3,7, Jian Ma6, Ying Lei8, Utz J Pape1, Michael Poidinger3,5, Yiwen Chen1, Kevin Yeung3,9, Myles Brown2,10, Yaron Turpaz3,11, X Shirley Liu1,2
1Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute and Harvard School of Public Health, Boston, USA
2Center for Functional Cancer Epigenetics, Dana-Farber Cancer Institute, Boston, USA
3Lilly Singapore Centre for Drug Discovery, Immunos, Singapore
4Beijing Genomics Institute, Shenzhen, China
5Singapore Immunology Network, Singapore
6School of Life Science and Technology, Tongji University, Shanghai, China
7Eli Lilly and Company, Lilly Corporate Center, Indianapolis, USA
8Department of Bioengineering, Stanford University, Stanford, USA
9Jardine Lloyd Thompson Asia, Singapore
10Department of Medical Oncology, Dana-Farber Cancer Institute and Harvard Medical School, Boston, USA
11AstraZeneca Pharmaceuticals LP, Waltham, USA

Tóm tắt

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/ .

Tài liệu tham khảo

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