# Proteome and Genome

> **NIH NIH P01** · UNIVERSITY OF ARIZONA · 2020 · $296,506

## Abstract

ABSTRACT: This Proteome & Genome Core (PPG Core B) will provide essential, cutting edge,
proteomic/transcriptomic/genetic expertise to facilitate the translational impact of this highly integrated PPG.
This PPG Core will be responsible for providing the research investigators with a well characterized ARDS
biobank (i.e. DNA from European descent and African descent subjects), a complete list of tagging single
nucleotide polymorphisms (tSNPs) for each PPG candidate gene, mid-throughput genotyping services, and
data analysis tools to test for association between PPG-studied SNPs and susceptibility and severity of ARDS.
The functional non-synonymous coding SNPs will be screened in silico to identify their impact on protein
structure and function (protein-protein interaction, catalytic activity, post-translational modification) by
computational protein structure molecular modeling, with protein-protein interaction validated by surface
plasmon resonance (SPR) screening. Effects of exon-intron boundary SNPs on alternative splicing of these
key genes will be analyzed by in silico prediction and further validated by SNP-containing minigene constructs
in individual projects. PPG Core B will provide the service to generate the mutated DNA constructs (with
disease-associated SNP) to generate recombinant protein used in SPR, or GRF-labeled protein for cellular
location tracking in endothelial cells (to be used in Core D and individual projects). In addition, this PPG Core
will further validate the genomic expression data by proteomic approaches (2-D protein gel and mass
spectrometry). On top of the protein level characterization, the PPG Core B will define the protein translational
modification (PTM) status including phosphorylation, nitration, and ubiquitination via traditional mass
spectrometry analysis. PPG Core B will utilize the up-to-date technologies to provide a proteomic-genomic
study platform for all three Projects and generate novel information on the genes targeted for investigation in
this PPG. This PPG Core will also provide software and hardware infrastructure for (i) federated tissue
management (e.g. chain of custody while transferring tissues from any lab to any Core) and (ii) secure data
exchange between Cores and Research investigators. Core B will also resource investigators and Cores with
TissueMetrix tissue management software that also provides chain of custody management of samples
transferred between investigators and Cores and reconciliation between lists of samples send and received. In
addition, large files generated by the cores will be transferred to investigators using a secure IPSwitch portal
that also manages authentication and keeps logs of accessed files by legitimate users (e.g. genomics,
transcriptomic, proteomics, imaging).

## Key facts

- **NIH application ID:** 9925255
- **Project number:** 5P01HL126609-05
- **Recipient organization:** UNIVERSITY OF ARIZONA
- **Principal Investigator:** YVES A LUSSIER
- **Activity code:** P01 (R01, R21, SBIR, etc.)
- **Funding institute:** NIH
- **Fiscal year:** 2020
- **Award amount:** $296,506
- **Award type:** 5
- **Project period:** — → 2022-03-31

## Primary source

NIH RePORTER: https://reporter.nih.gov/project-details/9925255

## Citation

> US National Institutes of Health, RePORTER application 9925255, Proteome and Genome (5P01HL126609-05). Retrieved via AI Analytics 2026-06-10 from https://api.ai-analytics.org/grant/nih/9925255. Licensed CC0.

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