# Transcriptome & Networks Analysis Core

> **NIH NIH P20** · SOUTH DAKOTA STATE UNIVERSITY · 2024 · $400,398

## Abstract

Project Summary – Core B: TRANSCRIPTOME AND NETWORK ANALYSIS CORE
The advent of high-throughput omics technologies enables powerful analyses of cellular transcriptional
programs, gene-function relationships and genome-wide surveys at unprecedented detail. Individual
investigators face many hurdles in implementing these new technologies and effectively translating these large
datasets into mechanistic understanding of molecular pathways. The goal of the Transcriptome and Network
Analysis Core (TNAC) is to facilitate the effective use of omics technologists and the downstream
bioinformatics analyses. This core leverages the expertise of Dr. Gonzalez Hernandez, Director of the SDSU
Genomics Sequencing Facility, with expertise in genetics and genomics analysis, and Dr. Xijin Ge,
experienced bioinformatician and biomedical researcher. Specifically, this core will enable the project leads to
use the following technology to study inflammation: RNA sequencing (RNA-seq), CRISPR whole genome
screening, spatially resolved RNA-seq, and proteomics. The TNAC has 3 specific aims: 1) Transcriptomic
analyses by conventional RNA-Seq and deep sequencing for analysis of CRISPR insertions; 2) The use of
spatially resolved and single cell RNA-seq technology and associated bioinformatics workflows; and 3) Data
integration and extensive pathway analysis using and adapting bioinformatics tools and resources, including
those developed by Dr. Xijin Ge, to construct gene regulatory networks underlying inflammation, integrate
proteomics data, and conduct meta-analysis of data generated by the three projects alongside data in the
public domain. This core is innovative in that it brings together cutting-edge experimental technology with the
latest bioinformatics tools and approaches. Working closely with the four project leads, this core will exemplify
interdisciplinary collaboration, and significantly promote the adoption of cutting-edge technologies among
biomedical researchers in the region.

## Key facts

- **NIH application ID:** 10772049
- **Project number:** 5P20GM135008-03
- **Recipient organization:** SOUTH DAKOTA STATE UNIVERSITY
- **Principal Investigator:** Jose Luis Gonzalez Hernandez
- **Activity code:** P20 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2024
- **Award amount:** $400,398
- **Award type:** 5
- **Project period:** 2022-03-20 → 2027-01-31

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/10772049

## Citation

> US National Institutes of Health, RePORTER application 10772049, Transcriptome & Networks Analysis Core (5P20GM135008-03). Retrieved via AI Analytics 2026-05-24 from https://api.ai-analytics.org/grant/nih/10772049. Licensed CC0.

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