# Functional Genomics Core

> **NIH NIH P20** · UNIVERSITY OF SOUTH CAROLINA AT COLUMBIA · 2022 · $194,075

## Abstract

ABSTRACT
The Functional Genomics Core (FGC), a key component of the COBRE Center for Targeted Therapeutics
(CTT), enables current and future COBRE faculty to conduct high-throughput target discovery and validation
studies through sophisticated functional genomics technologies. These include target identification through
phenotypic selection of Transdominant Genetic Regulators (TGRs), transcriptomic and epigenomic analysis
through Next-Gen Sequencing (NGS) and microarray-based approaches, vector generation, lentiviral
transduction, cell line modification and gene expression analysis. The FGC will support all four COBRE
Projects via three Specific Aims: Aim 1. Train COBRE investigators; assist in designing and implementing
the strategies for TGR-based target identification using short hairpin RNA (shRNA), single guide RNA
(sgRNA) and Genetic Suppressor Element (GSE) libraries. The FGC will provide several transcriptome-
scale human sgRNAs, shRNA and GSE libraries; conduct lentiviral transduction of TGI libraries into recipient
cell lines; and assist COBRE investigators with selection procedures. The FGC will also produce “focused”
shRNA libraries of a subset of genes for preliminary high-throughput validation and prioritization of the targets
identified in the initial selection, and help in testing individual targets through shRNA transduction or siRNA
transfection. Aim 2. Assist COBRE investigators with genetic modification of cell lines for target or drug
discovery or characterization through lentiviral transduction. The FGC will assist COBRE investigators in
modifying cell lines for screening or analysis purposes. These modifications will include introducing fluorescent
tags, promoter-reporter constructs, and the knockdown or overexpression of specific genes, in both stable and
inducible formats. Aim 3. Carry out transcriptomic and epigenomic profiling and gene expression
measurement for analyzing the effects of experimental compounds and genetic inhibitors. The FGC will
provide transcriptomic services through RNA-seq using Illumina NextSeq500 and microarray analysis on both
the Agilent and Affymetrix platforms. The FGC will assist investigators with the bioinformatics analysis of the
transcriptomic data. The FGC will also provide epigenomics analysis services, including Assay for
Transposase Accessible Chromatin with high-throughput sequencing (ATAC-Seq) and Chromatin
Immunoprecipitation with high-throughput sequencing (ChIP-seq) and other NGS-based services, assist with
NGS data analysis and with quantitative real-time reverse-transcription-PCR for gene expression
measurements. The FGC will also support COBRE investigators in assuring scientific rigor through cell line
authentication and mycoplasma testing services. The FGC will enable junior investigators to venture into areas
of research that require sophisticated skills and years of experience, accelerating the pace of discovery and at
the same time nurturing junior investigators into highl...

## Key facts

- **NIH application ID:** 10403530
- **Project number:** 5P20GM109091-09
- **Recipient organization:** UNIVERSITY OF SOUTH CAROLINA AT COLUMBIA
- **Principal Investigator:** Michael Shtutman
- **Activity code:** P20 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2022
- **Award amount:** $194,075
- **Award type:** 5
- **Project period:** 2014-07-10 → 2024-04-30

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/10403530

## Citation

> US National Institutes of Health, RePORTER application 10403530, Functional Genomics Core (5P20GM109091-09). Retrieved via AI Analytics 2026-05-24 from https://api.ai-analytics.org/grant/nih/10403530. Licensed CC0.

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