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YY1TargetDB: an integral information resource for Yin Yang 1 target loci

Yin Yang 1 (YY1), a ubiquitously expressed transcription factor, plays a critical role in regulating cell development, differentiation, cellular proliferation and tumorigenesis. Previous studies identified many YY1-regulated target genes in both human and mouse. Emerging global mapping by Chromatin...

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Autores principales: Guo, Andy M., Sun, Kun, Su, Xiaoxi, Wang, Huating, Sun, Hao
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2013
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3572531/
https://www.ncbi.nlm.nih.gov/pubmed/23411719
http://dx.doi.org/10.1093/database/bat007
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author Guo, Andy M.
Sun, Kun
Su, Xiaoxi
Wang, Huating
Sun, Hao
author_facet Guo, Andy M.
Sun, Kun
Su, Xiaoxi
Wang, Huating
Sun, Hao
author_sort Guo, Andy M.
collection PubMed
description Yin Yang 1 (YY1), a ubiquitously expressed transcription factor, plays a critical role in regulating cell development, differentiation, cellular proliferation and tumorigenesis. Previous studies identified many YY1-regulated target genes in both human and mouse. Emerging global mapping by Chromatin ImmnoPrecipitation (ChIP)-based high-throughput experiments indicate that YY1 binds to a vast number of loci genome-wide. However, the information is widely scattered in many disparate poorly cross-indexed literatures; a large portion was only published recently by the ENCODE consortium with limited annotation. A centralized database, which annotates and organizes YY1-binding loci and target motifs in a systematic way with easy access, will be valuable resources for the research community. We therefore implemented a web-based YY1 Target loci Database (YY1TargetDB). This database contains YY1-binding loci (binding peaks) from ChIP-seq and ChIP-on-chip experiments, computationally predicated YY1 and cofactor motifs within each locus. It also collects the experimentally verified YY1-binding motifs from individual researchers. The current version of YY1TargetDB contains 92 314 binding loci identified by ChIP-based experiments; 157 200 YY1-binding motifs in which 42 are experimentally verified and 157 158 are computationally predicted; and 130 759 binding motifs for 47 cofactors. Database URL: http://www.myogenesisdb.org/YY1TargetDB
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spelling pubmed-35725312013-02-14 YY1TargetDB: an integral information resource for Yin Yang 1 target loci Guo, Andy M. Sun, Kun Su, Xiaoxi Wang, Huating Sun, Hao Database (Oxford) Original Article Yin Yang 1 (YY1), a ubiquitously expressed transcription factor, plays a critical role in regulating cell development, differentiation, cellular proliferation and tumorigenesis. Previous studies identified many YY1-regulated target genes in both human and mouse. Emerging global mapping by Chromatin ImmnoPrecipitation (ChIP)-based high-throughput experiments indicate that YY1 binds to a vast number of loci genome-wide. However, the information is widely scattered in many disparate poorly cross-indexed literatures; a large portion was only published recently by the ENCODE consortium with limited annotation. A centralized database, which annotates and organizes YY1-binding loci and target motifs in a systematic way with easy access, will be valuable resources for the research community. We therefore implemented a web-based YY1 Target loci Database (YY1TargetDB). This database contains YY1-binding loci (binding peaks) from ChIP-seq and ChIP-on-chip experiments, computationally predicated YY1 and cofactor motifs within each locus. It also collects the experimentally verified YY1-binding motifs from individual researchers. The current version of YY1TargetDB contains 92 314 binding loci identified by ChIP-based experiments; 157 200 YY1-binding motifs in which 42 are experimentally verified and 157 158 are computationally predicted; and 130 759 binding motifs for 47 cofactors. Database URL: http://www.myogenesisdb.org/YY1TargetDB Oxford University Press 2013-02-14 /pmc/articles/PMC3572531/ /pubmed/23411719 http://dx.doi.org/10.1093/database/bat007 Text en © The Author(s) 2013. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/3.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0/), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Original Article
Guo, Andy M.
Sun, Kun
Su, Xiaoxi
Wang, Huating
Sun, Hao
YY1TargetDB: an integral information resource for Yin Yang 1 target loci
title YY1TargetDB: an integral information resource for Yin Yang 1 target loci
title_full YY1TargetDB: an integral information resource for Yin Yang 1 target loci
title_fullStr YY1TargetDB: an integral information resource for Yin Yang 1 target loci
title_full_unstemmed YY1TargetDB: an integral information resource for Yin Yang 1 target loci
title_short YY1TargetDB: an integral information resource for Yin Yang 1 target loci
title_sort yy1targetdb: an integral information resource for yin yang 1 target loci
topic Original Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3572531/
https://www.ncbi.nlm.nih.gov/pubmed/23411719
http://dx.doi.org/10.1093/database/bat007
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