Core E - The principal objective of the Genomics and Sequencing (GS) Core of the Center for AIDS research (CFAR) at the University of California San Diego (UCSD) is to facilitate the research of HIV/AIDS investigators by providing cost-effective access to cutting-edge genomics and sequencing technologies. The GS Core will help investigators realize the enormous potential of these approaches to assist basic and applied research into the role of host and viral genes in HIV infection and pathogenesis, leading to new insights and treatments. Support for developmental projects and investigators new to HIV research is an area of special emphasis.
The specific aims of the GS Core are: (1) to develop and provide molecular tools and resources to HIV researchers for the determination of host and viral mechanisms of pathogenesis, (2) to guide HIV researchers in the value, use, and interpretation of genetic information and gene expression data, and (3) to facilitate education and training in genomics and sequencing technologies for CFAR investigators, students, staff, and other researchers. The GS Core will achieve these aims by providing: (1) assays for gene expression, viral detection and quantitation for research purposes, genetic variation, tools for functional genomics (e.g., siRNA expressing vectors), sequencing and/or deep sequencing of virus, host, transcriptome, or small RNAs, and provision of useful reagents to researchers, (2) analysis of gene expression and genetic variation, help with open source and proprietary tools for alignment and comparison of sequences, and collaboration with the Bioinformatics and Information Technologies (BIT) Core in molecular phylogeny studies, application-specific high throughput sequencing (HTS) pipelines, or more advanced data analysis, and (3) seminars, workshops, and individual training for graduate students and fellows, web resources, and mentoring of undergraduate independent study students. The GS Core will serve as an important resource for basic and translational HIV-related research, as best exemplified by 129 publications and 211 investigators supported by the combined services of the Genomics and Molecular Biology Cores since the last renewal. All evidence indicates the GS Core will be a valuable, productive, and popular basic science core for the UCSD CFAR.

Public Health Relevance

The Genomics and Sequencing (GS) Core of the Center for AIDS Research at UCSD provides HIV/AIDS researchers with access to the latest genomics technologies and sequencing applications for their research. The services performed by the GS Core provide information on the host and viral mechanisms of HIV associated disease. This in turn will lead to new treatments and interventions for HIV-infected individuals

National Institute of Health (NIH)
National Institute of Allergy and Infectious Diseases (NIAID)
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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Mills, Jon C; Harman, Jeffrey S; Cook, Robert L et al. (2017) Comparative effectiveness of dual vs. single-action antidepressants on HIV clinical outcomes in HIV-infected people with depression. AIDS 31:2515-2524
Hoenigl, Martin; Braun, Dominique L; Kouyos, Roger et al. (2017) Evaluation of the Predictive Potential of the Short Acute Retroviral Syndrome Severity Score for HIV-1 Disease Progression in Individuals With Acute HIV Infection. J Acquir Immune Defic Syndr 74:e114-e117
Morris, Sheldon R; Zhao, Mitchell; Smith, Davey M et al. (2017) Longitudinal Viral Dynamics in Semen During Early HIV Infection. Clin Infect Dis 64:428-434
Wagner, Gabriel A; Landais, Elise; Caballero, Gemma et al. (2017) Intrasubtype B HIV-1 Superinfection Correlates with Delayed Neutralizing Antibody Response. J Virol 91:
Monroe, Anne K; Fleishman, John A; Voss, Cindy C et al. (2017) Assessing Antiretroviral Use During Gaps in HIV Primary Care Using Multisite Medicaid Claims and Clinical Data. J Acquir Immune Defic Syndr 76:82-89
Chaillon, Antoine; Nakazawa, Masato; Wertheim, Joel O et al. (2017) No Substantial Evidence for Sexual Transmission of Minority HIV Drug Resistance Mutations in Men Who Have Sex with Men. J Virol 91:
Hartzler, Bryan; Carlini, Beatriz H; Newville, Howard et al. (2017) Identifying HIV care enrollees at-risk for cannabis use disorder. AIDS Care 29:846-850
Akrami, Kevan; Coletta, Joelle; Mehta, Sanjay et al. (2017) Gordonia sternal wound infection treated with ceftaroline: case report and literature review. JMM Case Rep 4:e005113
Gianella, Sara; Taylor, Jeff; Brown, Timothy R et al. (2017) Can research at the end of life be a useful tool to advance HIV cure? AIDS 31:1-4
Spies, Georgina; Fennema-Notestine, Christine; Cherner, Mariana et al. (2017) Changes in cognitive function in women with HIV infection and early life stress. AIDS Care 29:14-23

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