title: Retrovirus Integration Database (RID): a public database for retroviral insertion sites into host genomes.
abstract: 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.
  
  
  
  https://rid.ncifcrf.gov ; or http://home.ncifcrf.gov/hivdrp/resources.htm .
authors.affiliation: Advanced Biomedical Computing Center, Leidos Biomedical Research, Inc., Frederick National Laboratory for Cancer Research (FNLCR), Frederick, MD, USA. shaow@mail.nih.gov.
authors.forename: Wei
authors.initials: W
authors.lastname: Shao
authors.affiliation: Advanced Biomedical Computing Center, Leidos Biomedical Research, Inc., Frederick National Laboratory for Cancer Research (FNLCR), Frederick, MD, USA.
authors.forename: Jigui
authors.initials: J
authors.lastname: Shan
authors.affiliation: HIV Dynamics and Replication Program, NCI, Frederick, MD, USA.
authors.forename: Mary F
authors.initials: MF
authors.lastname: Kearney
authors.affiliation: Leidos Biomedical Research, Inc., Frederick National Laboratory for Cancer Research (FNLCR), Frederick, MD, USA.
authors.forename: Xiaolin
authors.initials: X
authors.lastname: Wu
authors.affiliation: HIV Dynamics and Replication Program, NCI, Frederick, MD, USA.
authors.forename: Frank
authors.initials: F
authors.lastname: Maldarelli
authors.affiliation: Division of Infectious Disease, University of Pittsburgh, Pittsburgh, PA, USA.
authors.forename: John W
authors.initials: JW
authors.lastname: Mellors
authors.affiliation: Advanced Biomedical Computing Center, Leidos Biomedical Research, Inc., Frederick National Laboratory for Cancer Research (FNLCR), Frederick, MD, USA.
authors.forename: Brian
authors.initials: B
authors.lastname: Luke
authors.affiliation: Department of Molecular Biology and Microbiology, Tufts University, Boston, MA, USA.
authors.forename: John M
authors.initials: JM
authors.lastname: Coffin
authors.affiliation: HIV Dynamics and Replication Program, NCI, Frederick, MD, USA.
authors.forename: Stephen H
authors.initials: SH
authors.lastname: Hughes
mesh_terms: D030541:Databases, Genetic; D015894:Genome, Human; D015497:HIV-1 / Q000235:genetics; D054884:Host-Pathogen Interactions / Q000235:genetics; D006801:Humans; D020407:Internet; D011533:Proviruses / Q000235:genetics; D012190:Retroviridae / Q000235:genetics*; D016662:Virus Integration / Q000235:genetics*
keywords: Database; Expanded clones; HIV; ISA; Integration site; Integration site assay; Retrovirus