hmChIP statistics

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hmChIP specifications


Unique identifier OMICS_00536
Name hmChIP
Restrictions to use None
Community driven No
Data access Browse
User data submission Not allowed
Maintained Yes


  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus


  • person_outline Hongkai Ji

Publication for hmChIP

hmChIP citations


Large differences in global transcriptional regulatory programs of normal and tumor colon cells

BMC Cancer
PMCID: 4182786
PMID: 25253512
DOI: 10.1186/1471-2407-14-708

[…] quence around the transcription start site +/- 1 kb according to hg18 coordinates was obtained with the BSgenome R/Bioconductor package version 1.24.0. The validation analysis was performed using the hmChIP database, which contains ChIP-Seq and ChIP-on-chip data from ENCODE experiments that represent more than 10,000,000 protein-DNA interactions []. Only the interactions of TFs with at least more […]


Elucidation of How Cancer Cells Avoid Acidosis through Comparative Transcriptomic Data Analysis

PLoS One
PMCID: 3743895
PMID: 23967163
DOI: 10.1371/journal.pone.0071177

[…] veral TFs and other factors related to transcription regulation for human and mouse . The regulatory relationships were inferred based on ChIP-Seq data collected under 777 different conditions in the hmChip database and transcription factors from the UCSC Genome Browser . […]


Novel semantic similarity measure improves an integrative approach to predicting gene functional associations

BMC Syst Biol
PMCID: 3663825
PMID: 23497449
DOI: 10.1186/1752-0509-7-22

[…] DNA or microRNA-mRNA interactions, lag behind PPIs both in coverage and curation, although there have been recent efforts to compile and integrate known interactions into databases and portals (e.g., hmChIP [], PSICQUIC [], mirDIP [], and IPAD []).Improving the coverage and connectivity of the interactome requires new experimental data; however, empirical methods, particularly high-throughput tech […]


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hmChIP institution(s)
Department of Biostatistics, The Johns Hopkins University Bloomberg School of Public Health, Baltimore, MD, USA
hmChIP funding source(s)
Supported by National Institute of Health (R01HG005220).

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