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Retrovirus Integration Database (RID): a public database for retroviral insertion sites into host genomes
The NCI Retrovirus Integration Database is a MySql-based relational database created for storing and retrieving comprehensive information about retroviral integration sites, primarily, but not exclusively, HIV-1. The database is accessible to the public for submission or extraction of data originati...
Autores principales: | , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2016
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4932684/ https://www.ncbi.nlm.nih.gov/pubmed/27377064 http://dx.doi.org/10.1186/s12977-016-0277-6 |
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author | Shao, Wei Shan, Jigui Kearney, Mary F. Wu, Xiaolin Maldarelli, Frank Mellors, John W. Luke, Brian Coffin, John M. Hughes, Stephen H. |
author_facet | Shao, Wei Shan, Jigui Kearney, Mary F. Wu, Xiaolin Maldarelli, Frank Mellors, John W. Luke, Brian Coffin, John M. Hughes, Stephen H. |
author_sort | Shao, Wei |
collection | PubMed |
description | The NCI Retrovirus Integration Database is a MySql-based relational database created for storing and retrieving comprehensive information about retroviral integration sites, primarily, but not exclusively, HIV-1. The database is accessible to the public for submission or extraction of data originating from experiments aimed at collecting information related to retroviral integration sites including: the site of integration into the host genome, the virus family and subtype, the origin of the sample, gene exons/introns associated with integration, and proviral orientation. Information about the references from which the data were collected is also stored in the database. Tools are built into the website that can be used to map the integration sites to UCSC genome browser, to plot the integration site patterns on a chromosome, and to display provirus LTRs in their inserted genome sequence. The website is robust, user friendly, and allows users to query the database and analyze the data dynamically. Availability: https://rid.ncifcrf.gov; or http://home.ncifcrf.gov/hivdrp/resources.htm. |
format | Online Article Text |
id | pubmed-4932684 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2016 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-49326842016-07-06 Retrovirus Integration Database (RID): a public database for retroviral insertion sites into host genomes Shao, Wei Shan, Jigui Kearney, Mary F. Wu, Xiaolin Maldarelli, Frank Mellors, John W. Luke, Brian Coffin, John M. Hughes, Stephen H. Retrovirology Short Report The NCI Retrovirus Integration Database is a MySql-based relational database created for storing and retrieving comprehensive information about retroviral integration sites, primarily, but not exclusively, HIV-1. The database is accessible to the public for submission or extraction of data originating from experiments aimed at collecting information related to retroviral integration sites including: the site of integration into the host genome, the virus family and subtype, the origin of the sample, gene exons/introns associated with integration, and proviral orientation. Information about the references from which the data were collected is also stored in the database. Tools are built into the website that can be used to map the integration sites to UCSC genome browser, to plot the integration site patterns on a chromosome, and to display provirus LTRs in their inserted genome sequence. The website is robust, user friendly, and allows users to query the database and analyze the data dynamically. Availability: https://rid.ncifcrf.gov; or http://home.ncifcrf.gov/hivdrp/resources.htm. BioMed Central 2016-07-04 /pmc/articles/PMC4932684/ /pubmed/27377064 http://dx.doi.org/10.1186/s12977-016-0277-6 Text en © The Author(s) 2016 Open AccessThis 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 | Short Report Shao, Wei Shan, Jigui Kearney, Mary F. Wu, Xiaolin Maldarelli, Frank Mellors, John W. Luke, Brian Coffin, John M. Hughes, Stephen H. Retrovirus Integration Database (RID): a public database for retroviral insertion sites into host genomes |
title | Retrovirus Integration Database (RID): a public database for retroviral insertion sites into host genomes |
title_full | Retrovirus Integration Database (RID): a public database for retroviral insertion sites into host genomes |
title_fullStr | Retrovirus Integration Database (RID): a public database for retroviral insertion sites into host genomes |
title_full_unstemmed | Retrovirus Integration Database (RID): a public database for retroviral insertion sites into host genomes |
title_short | Retrovirus Integration Database (RID): a public database for retroviral insertion sites into host genomes |
title_sort | retrovirus integration database (rid): a public database for retroviral insertion sites into host genomes |
topic | Short Report |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4932684/ https://www.ncbi.nlm.nih.gov/pubmed/27377064 http://dx.doi.org/10.1186/s12977-016-0277-6 |
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