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oPOSSUM-3: Advanced Analysis of Regulatory Motif Over-Representation Across Genes or ChIP-Seq Datasets

oPOSSUM-3 is a web-accessible software system for identification of over-represented transcription factor binding sites (TFBS) and TFBS families in either DNA sequences of co-expressed genes or sequences generated from high-throughput methods, such as ChIP-Seq. Validation of the system with known se...

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Detalles Bibliográficos
Autores principales: Kwon, Andrew T., Arenillas, David J., Hunt, Rebecca Worsley, Wasserman, Wyeth W.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Genetics Society of America 2012
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3429929/
https://www.ncbi.nlm.nih.gov/pubmed/22973536
http://dx.doi.org/10.1534/g3.112.003202
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author Kwon, Andrew T.
Arenillas, David J.
Hunt, Rebecca Worsley
Wasserman, Wyeth W.
author_facet Kwon, Andrew T.
Arenillas, David J.
Hunt, Rebecca Worsley
Wasserman, Wyeth W.
author_sort Kwon, Andrew T.
collection PubMed
description oPOSSUM-3 is a web-accessible software system for identification of over-represented transcription factor binding sites (TFBS) and TFBS families in either DNA sequences of co-expressed genes or sequences generated from high-throughput methods, such as ChIP-Seq. Validation of the system with known sets of co-regulated genes and published ChIP-Seq data demonstrates the capacity for oPOSSUM-3 to identify mediating transcription factors (TF) for co-regulated genes or co-recovered sequences. oPOSSUM-3 is available at http://opossum.cisreg.ca.
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spelling pubmed-34299292012-09-13 oPOSSUM-3: Advanced Analysis of Regulatory Motif Over-Representation Across Genes or ChIP-Seq Datasets Kwon, Andrew T. Arenillas, David J. Hunt, Rebecca Worsley Wasserman, Wyeth W. G3 (Bethesda) Investigations oPOSSUM-3 is a web-accessible software system for identification of over-represented transcription factor binding sites (TFBS) and TFBS families in either DNA sequences of co-expressed genes or sequences generated from high-throughput methods, such as ChIP-Seq. Validation of the system with known sets of co-regulated genes and published ChIP-Seq data demonstrates the capacity for oPOSSUM-3 to identify mediating transcription factors (TF) for co-regulated genes or co-recovered sequences. oPOSSUM-3 is available at http://opossum.cisreg.ca. Genetics Society of America 2012-09-01 /pmc/articles/PMC3429929/ /pubmed/22973536 http://dx.doi.org/10.1534/g3.112.003202 Text en Copyright © 2012 Kwon et al. http://creativecommons.org/licenses/by/3.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution Unported License (http://creativecommons.org/licenses/by/3.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Investigations
Kwon, Andrew T.
Arenillas, David J.
Hunt, Rebecca Worsley
Wasserman, Wyeth W.
oPOSSUM-3: Advanced Analysis of Regulatory Motif Over-Representation Across Genes or ChIP-Seq Datasets
title oPOSSUM-3: Advanced Analysis of Regulatory Motif Over-Representation Across Genes or ChIP-Seq Datasets
title_full oPOSSUM-3: Advanced Analysis of Regulatory Motif Over-Representation Across Genes or ChIP-Seq Datasets
title_fullStr oPOSSUM-3: Advanced Analysis of Regulatory Motif Over-Representation Across Genes or ChIP-Seq Datasets
title_full_unstemmed oPOSSUM-3: Advanced Analysis of Regulatory Motif Over-Representation Across Genes or ChIP-Seq Datasets
title_short oPOSSUM-3: Advanced Analysis of Regulatory Motif Over-Representation Across Genes or ChIP-Seq Datasets
title_sort opossum-3: advanced analysis of regulatory motif over-representation across genes or chip-seq datasets
topic Investigations
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3429929/
https://www.ncbi.nlm.nih.gov/pubmed/22973536
http://dx.doi.org/10.1534/g3.112.003202
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