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TFmotifView: a webserver for the visualization of transcription factor motifs in genomic regions
2020
Nucleic Acids Research
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Despite the availability of hundreds of known TF motifs in databases, it remains non-trivial to quickly query and visualize the enrichment of known TF motifs in genomic regions of interest. ...
TFmotifView will contribute to the integration of TF motif information with a wide range of genomic datasets towards the goal to better understand the regulation of gene expression by transcription factors ...
ACKNOWLEDGEMENTS The authors thank the many beta testers of the web application for useful feedback and the Weber lab for helpful discussions. ...
doi:10.1093/nar/gkaa252
pmid:32324215
pmcid:PMC7319436
fatcat:hkx3ficd5nbtxc6ee4zghyaudq
Pan-cancer predictions of transcription factors mediating aberrant DNA methylation
2022
Epigenetics & Chromatin
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A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2022; you can also visit the original URL.
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We identified differentially methylated regions between cancer and matching healthy samples, searched for transcription factor motifs enriched in those regions and selected transcription factors with corresponding ...
Results Here, we integrated the massive amount of data available from The Cancer Genome Atlas to predict transcription factors driving aberrant DNA methylation in 13 cancer types. ...
Acknowledgements The authors thank the Weber lab for helpful discussions and Éléa Héberlé for initiating the experiments. ...
doi:10.1186/s13072-022-00443-w
pmid:35331302
pmcid:PMC8944071
fatcat:hz6nzm3vrfhefembcpaqi4zmny
Editorial: the 18th annual Nucleic Acids Research web server issue 2020
2020
Nucleic Acids Research
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A copy of this work was available on the public web and has been preserved in the Wayback Machine. The capture dates from 2020; you can also visit the original URL.
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As in the past, proposals were first editorially checked for their suitability and afterwards, websites or stand-alone tools were tested before allowing the submission of a manuscript. ...
These are our current website examiners: • Adam Simpkin holds a PhD in X-ray crystallography and is at the University of Liverpool, UK. • Piotr Grabowski owns a PhD in computational systems biology and ...
/tfmotifview/ Visualization of transcription factor motifs in genomic regions RiboToolkit http://rnabioinfor.tch.harvard.edu/ RiboToolkit Decoding RNA translation Short title
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TeamTat ...
doi:10.1093/nar/gkaa528
pmid:32589733
fatcat:2sfy5ppbvnbdlptyqgyt5gqj3y