Core L - Scientific inquiry and public health are being fundamentally changed by immense volumes of complex data, and modern computational techniques that are able to mine these data for pattern discovery and inference. The field of HIV research is no exception, and many innovative discoveries have been facilitated or validated by sophisticated modeling and data analyses. Traditional biostatistics services are neither designed to handle gigantic volumes of complex data, nor are these new data types (e.g., next generation sequencing data) a natural fit for current computational biology and informatics applications. The purpose of the Bioinformatics and Information Technologies (BIT) is to handle CFAR investigator demand for storing, managing, analyzing, interpreting, and disseminating large and complex data sets, especially those containing viral and host molecular sequences. Based on ongoing and anticipated future needs of CFAR members, in the next five years, the BIT Core is structured as three interlinked units that will: (1) provide bioinformatics support for CFAR researchers by leveraging world-class expertise in bioinformatics and computational biology available at UCSD to offer a comprehensive spectrum of services and consultations related to computational analyses of data collected by CFAR investigators;(2) supply content management systems, web services for biomedical data, and computational infrastructure;and (3) provide training in bioinformatics and information technology. The BIT Core is uniquely positioned to provide these innovative services to CFAR members by drawing upon cutting edge in-house methodological research, modern sequencing and biomedical technologies offered by other CFAR Cores (e.g. GS, PEP, Flow Cytometry Cores), and professional software development and support expertise of its programming team. The CFAR External Advisory Committee reviewed our Center in February, 2012 and noted the following about the BIT Core in their final report: "The BIT Core is likely to set the standard for how CFARs handle next generation sequencing analysis, cohort data management and provide web presence."

Public Health Relevance

The mission of the Bioinformatics and Information Technologies (BIT) Core is to provide accessible, affordable, reliable, flexible, and timely services and facilities for biomedical data management, computational analysis and interpretation of complex biomedical (especially sequence) data, and to train CFAR members in relevant computational and informatics techniques.

National Institute of Health (NIH)
Center Core Grants (P30)
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Special Emphasis Panel (ZAI1)
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University of California San Diego
La Jolla
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Choi, Jun Yong; Chaillon, Antoine; Oh, Jin Ok et al. (2016) HIV migration between blood plasma and cellular subsets before and after HIV therapy. J Med Virol 88:606-13
Chin, Bum Sik; Chaillon, Antoine; Mehta, Sanjay R et al. (2016) Molecular epidemiology identifies HIV transmission networks associated with younger age and heterosexual exposure among Korean individuals. J Med Virol 88:1832-5
Seifert, Marva; Georghiou, Sophia B; Catanzaro, Donald et al. (2016) MTBDRplus and MTBDRsl Assays: Absence of Wild-Type Probe Hybridization and Implications for Detection of Drug-Resistant Tuberculosis. J Clin Microbiol 54:912-8
Gianella, Sara; Kosakovsky Pond, Sergei L; Oliveira, Michelli F et al. (2016) Compartmentalized HIV rebound in the central nervous system after interruption of antiretroviral therapy. Virus Evol 2:vew020
Hoenigl, Martin; Chaillon, Antoine; Moore, David J et al. (2016) Clear Links Between Starting Methamphetamine and Increasing Sexual Risk Behavior: A Cohort Study Among Men Who Have Sex With Men. J Acquir Immune Defic Syndr 71:551-7
Karris, Maile Y; Umlauf, Anya; Vaida, Florin et al. (2016) A randomized controlled clinical trial on the impact of CCR5 blockade with maraviroc in early infection on T-cell dynamics. Medicine (Baltimore) 95:e5315
Smith, Laramie R; Patterson, Thomas L; Magis-Rodriguez, Carlos et al. (2016) Engagement in the HIV Care Continuum among Key Populations in Tijuana, Mexico. AIDS Behav 20:1017-25
Cáceres, Carlos F; Borquez, Annick; Klausner, Jeffrey D et al. (2016) Implementation of pre-exposure prophylaxis for human immunodeficiency virus infection: progress and emerging issues in research and policy. J Int AIDS Soc 19:21108
Freeman, Michael L; Lederman, Michael M; Gianella, Sara (2016) Partners in Crime: The Role of CMV in Immune Dysregulation and Clinical Outcome During HIV Infection. Curr HIV/AIDS Rep 13:10-9
Toth, Mate; Flandreau, Elizabeth I; Deslauriers, Jessica et al. (2016) Overexpression of Forebrain CRH During Early Life Increases Trauma Susceptibility in Adulthood. Neuropsychopharmacology 41:1681-90

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