Format

Send to

Choose Destination
Cancer Res. 2017 Nov 1;77(21):e19-e22. doi: 10.1158/0008-5472.CAN-17-0327.

Cistrome Cancer: A Web Resource for Integrative Gene Regulation Modeling in Cancer.

Mei S1,2, Meyer CA3,4, Zheng R1,2, Qin Q1,2, Wu Q1,2, Jiang P3,4, Li B3,4, Shi X1,2, Wang B1,2, Fan J1,2, Shih C5,6, Brown M4,7, Zang C8,4,5,9, Liu XS10,2,3,4.

Author information

1
Shanghai Key Laboratory of Tuberculosis, Clinical Translational Research Center, Shanghai Pulmonary Hospital, Tongji University, Shanghai, China.
2
Department of Bioinformatics, School of Life Sciences and Technology, Tongji University, Shanghai, China.
3
Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute and Harvard T.H. Chan School of Public Health, Boston, Massachusetts.
4
Center for Functional Cancer Epigenetics, Dana-Farber Cancer Institute, Boston, Massachusetts.
5
Center for Public Health Genomics, Department of Public Health Sciences, University of Virginia, Charlottesville, Virginia.
6
Department of Biomedical Engineering, Johns Hopkins University, Baltimore, Maryland.
7
Department of Medical Oncology, Dana-Farber Cancer Institute and Harvard Medical School, Boston, Massachusetts.
8
Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute and Harvard T.H. Chan School of Public Health, Boston, Massachusetts. zang@virginia.edu xsliu@jimmy.harvard.edu.
9
University of Virginia Cancer Center, Charlottesville, Virginia.
10
Shanghai Key Laboratory of Tuberculosis, Clinical Translational Research Center, Shanghai Pulmonary Hospital, Tongji University, Shanghai, China. zang@virginia.edu xsliu@jimmy.harvard.edu.

Abstract

Cancer results from a breakdown of normal gene expression control, so the study of gene regulation is critical to cancer research. To gain insight into the transcriptional and epigenetic factors regulating abnormal gene expression patterns in cancers, we developed the Cistrome Cancer web resource (http://cistrome.org/CistromeCancer/). We conducted the systematic integration and modeling of over 10,000 tumor molecular profiles from The Cancer Genome Atlas (TCGA) with over 23,000 ChIP-seq and chromatin accessibility profiles from our Cistrome collection. The results include reconstruction of functional enhancer profiles, "super-enhancer" target genes, as well as predictions of active transcription factors and their target genes for each TCGA cancer type. Cistrome Cancer reveals novel insights from integrative analyses combining chromatin profiles with tumor molecular profiles and will be a useful resource to the cancer gene regulation community. Cancer Res; 77(21); e19-22. ©2017 AACR.

PMID:
29092931
PMCID:
PMC5826647
DOI:
10.1158/0008-5472.CAN-17-0327
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for HighWire Icon for PubMed Central
Loading ...
Support Center