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Retrovirus Integration Database (RID): A public database for retroviral insertion sites into host genomes

Shao, W and Shan, J and Kearney, MF and Wu, X and Maldarelli, F and Mellors, JW and Luke, B and Coffin, JM and Hughes, SH (2016) Retrovirus Integration Database (RID): A public database for retroviral insertion sites into host genomes. Retrovirology, 13 (1).

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Abstract

© 2016 The Author(s). 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.


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Details

Item Type: Article
Status: Published
Creators/Authors:
CreatorsEmailPitt UsernameORCID
Shao, W
Shan, J
Kearney, MF
Wu, X
Maldarelli, F
Mellors, JWjwm1@pitt.eduJWM1
Luke, B
Coffin, JM
Hughes, SH
Date: 1 January 2016
Date Type: Publication
Access Restriction: No restriction; Release the ETD for access worldwide immediately.
Journal or Publication Title: Retrovirology
Volume: 13
Number: 1
DOI or Unique Handle: 10.1186/s12977-016-0277-6
Institution: University of Pittsburgh
Schools and Programs: School of Medicine > Infectious Diseases and Microbiology
Refereed: Yes
Date Deposited: 25 Jul 2016 13:53
Last Modified: 02 Feb 2019 14:55
URI: http://d-scholarship.pitt.edu/id/eprint/28616

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