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CistromeMap | A knowledgebase and web server for ChIP-Seq and DNase-Seq studies in mouse and human


A comprehensive and consistently annotated knowledgebase of all published or public ChIP-seq and DNase-seq data in mouse and human. In total, there are 2711 ChIP-Seq datasets for transcription and chromatin regulators, 2355 for histone modifications and variants, 412 DNase-Seq and 996 control datasets. Among transcription and chromatin regulators, POLR2A, CTCF, ESR1, RELA and EP300 are the most often profiled ChIP-Seq factors. For histone marks, H3K4me3, H3K27me3, H3K4me1, H3K36me3 and H3K9me3 ChIP-Seq are the most common, which together accounts for over 70% of all of the histone ChIP-Seq data.

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CistromeMap classification

  • Animals
    • Homo sapiens
    • Mus musculus

CistromeMap specifications

Unique identifier:
Community driven:
User data submission:
Not allowed
Restrictions to use:
Data access:

CistromeMap support



  • Liu Shirley <>


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Department of Bioinformatics, School of Life Science and Technology, Tongji University, Shanghai, China; Department of Biological Sciences, Dana and David Dornsife College of Letters, Arts and Sciences, University of Southern California, Los Angeles, CA, USA; Center for Functional Cancer Epigenetics, Dana-Farber Cancer Institute, Boston, MA, USA; Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute and Harvard School of Public Health, Boston, MA, USA; Department of Information Technology, China Novartis Institutes for BioMedical Research Co.,Ltd., Shanghai, China; Division of Biostatistics, Dan L Duncan Cancer Center and Department of Molecular and Cellular Biology, Baylor College of Medicine, One Baylor Plaza, Houston, TX, USA

Funding source(s)

National Basic Research (973) Program of China [2010CB944904], National Natural Science Foundation of China [31028011] and National Institutes of Health [HG4069]

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