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iHMS: a database integrating human histone modification data across developmental stages and tissues

BACKGROUND: Differences in chromatin states are critical to the multiplicity of cell states. Recently genome-wide histone modification maps of diverse human developmental stages and tissues have been charted. DESCRIPTION: To facilitate the investigation of epigenetic dynamics and regulatory mechanis...

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Autores principales: Gan, Yanglan, Tao, Han, Guan, Jihong, Zhou, Shuigeng
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2017
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5303264/
https://www.ncbi.nlm.nih.gov/pubmed/28187703
http://dx.doi.org/10.1186/s12859-017-1461-y
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author Gan, Yanglan
Tao, Han
Guan, Jihong
Zhou, Shuigeng
author_facet Gan, Yanglan
Tao, Han
Guan, Jihong
Zhou, Shuigeng
author_sort Gan, Yanglan
collection PubMed
description BACKGROUND: Differences in chromatin states are critical to the multiplicity of cell states. Recently genome-wide histone modification maps of diverse human developmental stages and tissues have been charted. DESCRIPTION: To facilitate the investigation of epigenetic dynamics and regulatory mechanisms in cellular differentiation processes, we developed iHMS, an integrated human histone modification database that incorporates massive histone modification maps spanning different developmental stages, lineages and tissues (http://www.tongjidmb.com/human/index.html). It also includes genome-wide expression data of different conditions, reference gene annotations, GC content and CpG island information. By providing an intuitive and user-friendly query interface, iHMS enables comprehensive query and comparative analysis based on gene names, genomic region locations, histone modification marks and cell types. Moreover, it offers an efficient browser that allows users to visualize and compare multiple genome-wide histone modification maps and related expression profiles across different developmental stages and tissues. CONCLUSION: iHMS is of great helpfulness to understand how global histone modification state transitions impact cellular phenotypes across different developmental stages and tissues in the human genome. This extensive catalog of histone modification states thus presents an important resource for epigenetic and developmental studies.
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spelling pubmed-53032642017-02-15 iHMS: a database integrating human histone modification data across developmental stages and tissues Gan, Yanglan Tao, Han Guan, Jihong Zhou, Shuigeng BMC Bioinformatics Database BACKGROUND: Differences in chromatin states are critical to the multiplicity of cell states. Recently genome-wide histone modification maps of diverse human developmental stages and tissues have been charted. DESCRIPTION: To facilitate the investigation of epigenetic dynamics and regulatory mechanisms in cellular differentiation processes, we developed iHMS, an integrated human histone modification database that incorporates massive histone modification maps spanning different developmental stages, lineages and tissues (http://www.tongjidmb.com/human/index.html). It also includes genome-wide expression data of different conditions, reference gene annotations, GC content and CpG island information. By providing an intuitive and user-friendly query interface, iHMS enables comprehensive query and comparative analysis based on gene names, genomic region locations, histone modification marks and cell types. Moreover, it offers an efficient browser that allows users to visualize and compare multiple genome-wide histone modification maps and related expression profiles across different developmental stages and tissues. CONCLUSION: iHMS is of great helpfulness to understand how global histone modification state transitions impact cellular phenotypes across different developmental stages and tissues in the human genome. This extensive catalog of histone modification states thus presents an important resource for epigenetic and developmental studies. BioMed Central 2017-02-11 /pmc/articles/PMC5303264/ /pubmed/28187703 http://dx.doi.org/10.1186/s12859-017-1461-y Text en © The Author(s) 2017 Open Access This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver(http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Database
Gan, Yanglan
Tao, Han
Guan, Jihong
Zhou, Shuigeng
iHMS: a database integrating human histone modification data across developmental stages and tissues
title iHMS: a database integrating human histone modification data across developmental stages and tissues
title_full iHMS: a database integrating human histone modification data across developmental stages and tissues
title_fullStr iHMS: a database integrating human histone modification data across developmental stages and tissues
title_full_unstemmed iHMS: a database integrating human histone modification data across developmental stages and tissues
title_short iHMS: a database integrating human histone modification data across developmental stages and tissues
title_sort ihms: a database integrating human histone modification data across developmental stages and tissues
topic Database
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5303264/
https://www.ncbi.nlm.nih.gov/pubmed/28187703
http://dx.doi.org/10.1186/s12859-017-1461-y
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