Repitools: an R package for the analysis of enrichment-based epigenomic data

Summary: Epigenetics, the study of heritable somatic phenotypic changes not related to DNA sequence, has emerged as a critical component of the landscape of gene regulation. The epigenetic layers, such as DNA methylation, histone modifications and nuclear architecture are now being extensively studi...

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Autores principales: Statham, Aaron L., Strbenac, Dario, Coolen, Marcel W., Stirzaker, Clare, Clark, Susan J., Robinson, Mark D.
Formato: Texto
Lenguaje:English
Publicado: Oxford University Press 2010
Materias:
Applications Note
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2887051/
https://www.ncbi.nlm.nih.gov/pubmed/20457667
http://dx.doi.org/10.1093/bioinformatics/btq247
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author Statham, Aaron L.
Strbenac, Dario
Coolen, Marcel W.
Stirzaker, Clare
Clark, Susan J.
Robinson, Mark D.
author_facet Statham, Aaron L.
Strbenac, Dario
Coolen, Marcel W.
Stirzaker, Clare
Clark, Susan J.
Robinson, Mark D.
author_sort Statham, Aaron L.
collection PubMed
description Summary: Epigenetics, the study of heritable somatic phenotypic changes not related to DNA sequence, has emerged as a critical component of the landscape of gene regulation. The epigenetic layers, such as DNA methylation, histone modifications and nuclear architecture are now being extensively studied in many cell types and disease settings. Few software tools exist to summarize and interpret these datasets. We have created a toolbox of procedures to interrogate and visualize epigenomic data (both array- and sequencing-based) and make available a software package for the cross-platform R language. Availability: The package is freely available under LGPL from the R-Forge web site (http://repitools.r-forge.r-project.org/) Contact: mrobinson@wehi.edu.au
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spelling pubmed-28870512010-06-18 Repitools: an R package for the analysis of enrichment-based epigenomic data Statham, Aaron L. Strbenac, Dario Coolen, Marcel W. Stirzaker, Clare Clark, Susan J. Robinson, Mark D. Bioinformatics Applications Note Summary: Epigenetics, the study of heritable somatic phenotypic changes not related to DNA sequence, has emerged as a critical component of the landscape of gene regulation. The epigenetic layers, such as DNA methylation, histone modifications and nuclear architecture are now being extensively studied in many cell types and disease settings. Few software tools exist to summarize and interpret these datasets. We have created a toolbox of procedures to interrogate and visualize epigenomic data (both array- and sequencing-based) and make available a software package for the cross-platform R language. Availability: The package is freely available under LGPL from the R-Forge web site (http://repitools.r-forge.r-project.org/) Contact: mrobinson@wehi.edu.au Oxford University Press 2010-07-01 2010-05-10 /pmc/articles/PMC2887051/ /pubmed/20457667 http://dx.doi.org/10.1093/bioinformatics/btq247 Text en © The Author(s) 2010. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.0/uk/ This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Applications Note
Statham, Aaron L.
Strbenac, Dario
Coolen, Marcel W.
Stirzaker, Clare
Clark, Susan J.
Robinson, Mark D.
Repitools: an R package for the analysis of enrichment-based epigenomic data
title Repitools: an R package for the analysis of enrichment-based epigenomic data
title_full Repitools: an R package for the analysis of enrichment-based epigenomic data
title_fullStr Repitools: an R package for the analysis of enrichment-based epigenomic data
title_full_unstemmed Repitools: an R package for the analysis of enrichment-based epigenomic data
title_short Repitools: an R package for the analysis of enrichment-based epigenomic data
title_sort repitools: an r package for the analysis of enrichment-based epigenomic data
topic Applications Note
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2887051/
https://www.ncbi.nlm.nih.gov/pubmed/20457667
http://dx.doi.org/10.1093/bioinformatics/btq247
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