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Cistrome Data Browser Cistrome DB

Online

A collection of ChIP-seq and chromatin accessibility data (DNase-seq and ATAC-seq) including 13366 human and 9953 mouse samples. Cistrome DB contains data which have been carefully curated and processed with a streamlined analysis pipeline and evaluated with comprehensive quality control metrics. A user-friendly web server allows data query, exploration and visualization. Cistrome DB provides a manually curated metadata annotation, presents analysis results, including a peak file, a read density file, motif scan results, putative target genes and summaries of the distribution of peaks. It provides comprehensive QC metrics at the read, peak and annotation levels and provides functions to analyze and visualize these samples. Users can directly send data to the Cistrome analysis pipeline (Cistrome AP) or load data to the UCSC and WashU genome browsers for visualization.

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Cistrome DB classification

  • Animals
    • Homo sapiens
    • Mus musculus

Cistrome DB specifications

Interface:
Web user interface
Computer skills:
Basic
Maintained:
Yes
Restrictions to use:
None
Stability:
Stable

Cistrome DB distribution

Cistrome DB support

Maintainer

  • Liu Shirley <>

Additional information

http://cistrome.org/db/#/tutorial

Credits

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Publications

Institution(s)

Clinical Translational Research Center, Shanghai Pulmonary Hospital, Tongji University, Shanghai, China; Department of Bioinformatics, School of Life Sciences and Technology, Tongji University, Shanghai, China; Department of Biostatistics and Computational Biology, Dana-Farber Cancer Institute and Harvard T.H. Chan School of Public Health, Boston, MA, USA; Center for Functional Cancer Epigenetics, Dana-Farber Cancer Institute, Boston, MA, USA; Department of Medical Oncology, Dana-Farber Cancer Institute and Harvard Medical School, Boston, MA, USA; MOE Key Laboratory of Bioinformatics, Bioinformatics Division and Center for Synthetic & Systems Biology, TNLIST; Department of Automation, Tsinghua University, Beijing, China; Department of Biochemistry, University at Buffalo, Buffalo, NY, USA

Funding source(s)

National Institutes of Health [U01 CA180980]; National Natural Science Foundation of China [31329003]; Campaign Technology Fund of Dana-Farber Cancer Institute.

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