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Reference data for WhichTF software

dataset
posted on 2022-07-06, 22:02 authored by Yosuke TanigawaYosuke Tanigawa, Ethan Dyer, Gill Bejerano

To identify functionally important transcription factors (TFs), we present WhichTF, a computational method that ranks TFs based on experimentally characterized chromatin accessibility measurements.


This dataset contains the reference data for this new method described in the following paper:


Y. Tanigawa, E. S. Dyer, and G. Bejerano. WhichTF is dominant in your open chromatin data?  PLOS Comput Biol 18(8): e1010378. (2022). https://doi.org/10.1371/journal.pcbi.1010378



Here, we provide the pre-computed reference for the software. There are 4 tar.gz compressed files, each of them correspond to one genome assembly of human or mouse genomes (human: hg19 and hg38 and mouse: mm9 and mm10).


Please see our manuscript and our Bitbucket repository (https://bitbucket.org/bejerano/whichtf) for more information about our method and the software.

If you use this dataset, please cite our pre-print.

Funding

Combining genetics, genomics, and anatomy to classify cell types across mammals

National Institute of Mental Health

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Stanford Mendelian Genomics Research Center

National Human Genome Research Institute

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SOFTWARE FOR LARGE-SCALE INFERENCE OF THE GENETICS OF LIFESTYLE MEASURES, BIOMARKERS, AND COMMON AND RARE DISEASES

National Human Genome Research Institute

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Interpreting non-coding variants using epigenomics, regulatory models, & validation experiments

National Human Genome Research Institute

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Single-Cell Transcriptional and Epigenomic Dissection to Identify Therapeutic Targets for ALS and FTD

National Institute on Aging

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the Funai Foundation for Information Technology

Stanford University School of Medicine

the Simons Collaboration Grant on the Non-Perturbative Bootstrap

History