Software
Cistrome: an integrative platform for transcriptional regulation studies
- † Equal contributors
1 Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute and Harvard School of Public Health, 450 Brookline Ave, Boston, MA 02215, USA
2 Center for Functional Cancer Epigenetics, Dana-Farber Cancer Institute, Boston, MA 02215, USA
3 Lilly Singapore Centre for Drug Discovery, 8A Biomedical Grove, Immunos, Singapore 138648
4 Beijing Genomics Institute, Beishan Industrial Zone, Yantian District, Shenzhen 518083, China
5 Singapore Immunology Network, 8A Biomedical Grove, Immunos Building level 3, Singapore 138648
6 School of Life Science and Technology, Tongji University, 1239 Siping Road, Shanghai 200092, China
7 Eli Lilly and Company, Lilly Corporate Center, Indianapolis, IN 46285, USA
8 Department of Bioengineering, Stanford University, 318 Campus Drive, Stanford, CA 94305, USA
9 Jardine Lloyd Thompson Asia, 1 Raffles Quay #27-01, One Raffles Quay - North Tower, Singapore 048583
10 Department of Medical Oncology, Dana-Farber Cancer Institute and Harvard Medical School, 450 Brookline Ave, Boston, MA 02215, USA
11 AstraZeneca Pharmaceuticals LP, 35 Gatehouse Drive, Waltham, MA 02451, USA
Genome Biology 2011, 12:R83 doi:10.1186/gb-2011-12-8-r83
Published: 22 August 2011Abstract
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/ webcite.
