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REPIC: a database for exploring the N(6)-methyladenosine methylome
The REPIC (RNA EPItranscriptome Collection) database records about 10 million peaks called from publicly available m(6)A-seq and MeRIP-seq data using our unified pipeline. These data were collected from 672 samples of 49 studies, covering 61 cell lines or tissues in 11 organisms. REPIC allows users...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2020
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7187508/ https://www.ncbi.nlm.nih.gov/pubmed/32345346 http://dx.doi.org/10.1186/s13059-020-02012-4 |
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author | Liu, Shun Zhu, Allen He, Chuan Chen, Mengjie |
author_facet | Liu, Shun Zhu, Allen He, Chuan Chen, Mengjie |
author_sort | Liu, Shun |
collection | PubMed |
description | The REPIC (RNA EPItranscriptome Collection) database records about 10 million peaks called from publicly available m(6)A-seq and MeRIP-seq data using our unified pipeline. These data were collected from 672 samples of 49 studies, covering 61 cell lines or tissues in 11 organisms. REPIC allows users to query N(6)-methyladenosine (m(6)A) modification sites by specific cell lines or tissue types. In addition, it integrates m(6)A/MeRIP-seq data with 1418 histone ChIP-seq and 118 DNase-seq data tracks from the ENCODE project in a modern genome browser to present a comprehensive atlas of m(6)A methylation sites, histone modification sites, and chromatin accessibility regions. REPIC is accessible at https://repicmod.uchicago.edu/repic. |
format | Online Article Text |
id | pubmed-7187508 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2020 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-71875082020-04-30 REPIC: a database for exploring the N(6)-methyladenosine methylome Liu, Shun Zhu, Allen He, Chuan Chen, Mengjie Genome Biol Database The REPIC (RNA EPItranscriptome Collection) database records about 10 million peaks called from publicly available m(6)A-seq and MeRIP-seq data using our unified pipeline. These data were collected from 672 samples of 49 studies, covering 61 cell lines or tissues in 11 organisms. REPIC allows users to query N(6)-methyladenosine (m(6)A) modification sites by specific cell lines or tissue types. In addition, it integrates m(6)A/MeRIP-seq data with 1418 histone ChIP-seq and 118 DNase-seq data tracks from the ENCODE project in a modern genome browser to present a comprehensive atlas of m(6)A methylation sites, histone modification sites, and chromatin accessibility regions. REPIC is accessible at https://repicmod.uchicago.edu/repic. BioMed Central 2020-04-28 /pmc/articles/PMC7187508/ /pubmed/32345346 http://dx.doi.org/10.1186/s13059-020-02012-4 Text en © The Author(s) 2020 Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. 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 in a credit line to the data. |
spellingShingle | Database Liu, Shun Zhu, Allen He, Chuan Chen, Mengjie REPIC: a database for exploring the N(6)-methyladenosine methylome |
title | REPIC: a database for exploring the N(6)-methyladenosine methylome |
title_full | REPIC: a database for exploring the N(6)-methyladenosine methylome |
title_fullStr | REPIC: a database for exploring the N(6)-methyladenosine methylome |
title_full_unstemmed | REPIC: a database for exploring the N(6)-methyladenosine methylome |
title_short | REPIC: a database for exploring the N(6)-methyladenosine methylome |
title_sort | repic: a database for exploring the n(6)-methyladenosine methylome |
topic | Database |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7187508/ https://www.ncbi.nlm.nih.gov/pubmed/32345346 http://dx.doi.org/10.1186/s13059-020-02012-4 |
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