Cistrome cancer: A web resource for integrative gene regulation modeling in cancer

Shenglin Mei, Clifford A. Meyer, Rongbin Zheng, Qian Qin, Qiu Wu, Peng Jiang, Bo Li, Xiaohui Shi, Binbin Wang, Jingyu Fan, Celina Shih, Myles Brown, Chongzhi Zang, X. Shirley Liu

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17 Scopus citations

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.

Original languageEnglish (US)
Pages (from-to)e19-e22
JournalCancer research
Volume77
Issue number21
DOIs
StatePublished - Nov 1 2017

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ASJC Scopus subject areas

  • Oncology
  • Cancer Research

Cite this

Mei, S., Meyer, C. A., Zheng, R., Qin, Q., Wu, Q., Jiang, P., Li, B., Shi, X., Wang, B., Fan, J., Shih, C., Brown, M., Zang, C., & Liu, X. S. (2017). Cistrome cancer: A web resource for integrative gene regulation modeling in cancer. Cancer research, 77(21), e19-e22. https://doi.org/10.1158/0008-5472.CAN-17-0327