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BioWardrobe: an integrated platform for analysis of epigenomics and transcriptomics data

High-throughput sequencing has revolutionized biology by enhancing our ability to perform genome-wide studies. However, due to lack of bioinformatics expertise, modern technologies are still beyond the capabilities of many laboratories. Herein, we present the BioWardrobe platform, which allows users...

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Detalles Bibliográficos
Autores principales: Kartashov, Andrey V., Barski, Artem
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4531538/
https://www.ncbi.nlm.nih.gov/pubmed/26248465
http://dx.doi.org/10.1186/s13059-015-0720-3
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author Kartashov, Andrey V.
Barski, Artem
author_facet Kartashov, Andrey V.
Barski, Artem
author_sort Kartashov, Andrey V.
collection PubMed
description High-throughput sequencing has revolutionized biology by enhancing our ability to perform genome-wide studies. However, due to lack of bioinformatics expertise, modern technologies are still beyond the capabilities of many laboratories. Herein, we present the BioWardrobe platform, which allows users to store, visualize and analyze epigenomics and transcriptomics data using a biologist-friendly web interface, without the need for programming expertise. Predefined pipelines allow users to download data, visualize results on a genome browser, calculate RPKMs (reads per kilobase per million) and identify peaks. Advanced capabilities include differential gene expression and binding analysis, and creation of average tag -density profiles and heatmaps. BioWardrobe can be found at http://biowardrobe.com. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s13059-015-0720-3) contains supplementary material, which is available to authorized users.
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spelling pubmed-45315382015-08-12 BioWardrobe: an integrated platform for analysis of epigenomics and transcriptomics data Kartashov, Andrey V. Barski, Artem Genome Biol Software High-throughput sequencing has revolutionized biology by enhancing our ability to perform genome-wide studies. However, due to lack of bioinformatics expertise, modern technologies are still beyond the capabilities of many laboratories. Herein, we present the BioWardrobe platform, which allows users to store, visualize and analyze epigenomics and transcriptomics data using a biologist-friendly web interface, without the need for programming expertise. Predefined pipelines allow users to download data, visualize results on a genome browser, calculate RPKMs (reads per kilobase per million) and identify peaks. Advanced capabilities include differential gene expression and binding analysis, and creation of average tag -density profiles and heatmaps. BioWardrobe can be found at http://biowardrobe.com. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s13059-015-0720-3) contains supplementary material, which is available to authorized users. BioMed Central 2015-08-07 2015 /pmc/articles/PMC4531538/ /pubmed/26248465 http://dx.doi.org/10.1186/s13059-015-0720-3 Text en © Kartashov and Barski. 2015 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 Software
Kartashov, Andrey V.
Barski, Artem
BioWardrobe: an integrated platform for analysis of epigenomics and transcriptomics data
title BioWardrobe: an integrated platform for analysis of epigenomics and transcriptomics data
title_full BioWardrobe: an integrated platform for analysis of epigenomics and transcriptomics data
title_fullStr BioWardrobe: an integrated platform for analysis of epigenomics and transcriptomics data
title_full_unstemmed BioWardrobe: an integrated platform for analysis of epigenomics and transcriptomics data
title_short BioWardrobe: an integrated platform for analysis of epigenomics and transcriptomics data
title_sort biowardrobe: an integrated platform for analysis of epigenomics and transcriptomics data
topic Software
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4531538/
https://www.ncbi.nlm.nih.gov/pubmed/26248465
http://dx.doi.org/10.1186/s13059-015-0720-3
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