# Core E: Genomics and Sequencing Core

> **NIH NIH P30** · UNIVERSITY OF CALIFORNIA, SAN DIEGO · 2021 · $416,536

## Abstract

Project Summary/Abstract
Core E – The Genomics and Sequencing Core (GS Core) is a laboratory based service Core designed to
facilitate HIV research involving genomics technologies. The GS Core provides an easy and efficient path for
SD Center for AIDS Research (SD CFAR) investigators to incorporate sophisticated genomics technologies
such as next generation sequencing (NGS), digital droplet PCR (dPCR) and single-cell genetic
characterization into their research activities. The specific aims of the GS Core are to:
Aim 1. Develop and provide molecular tools and resources for the determination of host and viral mechanisms
of pathogenesis (e.g. gene expression, viral quantitation, host and viral variation, copy number, HIV integration
assays, full-length pol and env sequencing, and other resources needed by the SD CFAR community);
Aim 2. Assist researchers in the value, use and interpretation of genetic information and gene expression data
(e.g. analysis of gene expression and sequence variation, application of software tools for alignment,
phylogeny and other sequence comparisons);
Aim 3. Facilitate education and training in genomics technologies for investigators, trainees, staff, and other
researchers (e.g. seminars and workshop presentation, participation in CFAR activities including Scientific
Working Group (SWG) meetings, individual training for graduate students, postdoctoral fellows and emerging
investigators learning genomics technologies, assist and direct users to reagents and materials useful in HIV
research).
Overall, “State of the Art” is ever changing for genomics and sequencing technology. To provide the most
useful and up-to-date services, the GS Core will monitor and anticipate the evolving needs of CFAR
investigators through user feedback, survey, evaluation of the directions of the community in meetings and
presentations, and incorporating recommendations from internal and external advisory committees and
reviews. Immediate challenges that are addressed in this application include: 1. Support of single-cell
sequencing technologies, 2. Facilitation of access to existing and planned pipelines for analysis of viral
variation, antiretroviral resistance, and viral integration, 3. Further development of long-read sequencing
technologies, and 4. “Hands On” workshops for CFAR investigators to foster a working knowledge of scripting
and analysis of phylogeny, expression, variation, and other topics.

## Key facts

- **NIH application ID:** 10140293
- **Project number:** 5P30AI036214-27
- **Recipient organization:** UNIVERSITY OF CALIFORNIA, SAN DIEGO
- **Principal Investigator:** David James Looney
- **Activity code:** P30 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2021
- **Award amount:** $416,536
- **Award type:** 5
- **Project period:** 1997-04-01 → 2023-03-31

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/10140293

## Citation

> US National Institutes of Health, RePORTER application 10140293, Core E: Genomics and Sequencing Core (5P30AI036214-27). Retrieved via AI Analytics 2026-05-22 from https://api.ai-analytics.org/grant/nih/10140293. Licensed CC0.

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