PXD029323

PXD029323 is an original dataset announced via ProteomeXchange.

Title	Peptide Ancestry Informative Markers in Uterine Neoplasms from Women of European, African and Asian Ancestry
Description	Characterization of ancestry-linked peptide variants in disease-relevant patient tissues represents a foundational step to connect patient ancestry with molecular disease pathogenesis. Nonsynonymous single nucleotide polymorphisms (SNPs) encoding missense substitutions within tryptic peptides exhibiting high allele frequencies in European, African, and East Asian populations, termed peptide ancestry informative markers (pAIMs), were prioritized from 1000 genomes. In silico analysis shows that as few as 20 pAIMs can determine ancestry proportions similarly to >260K SNPs (R2=0.9905). Multiplexed proteomic analysis of >100 human endometrial cancer cell lines and uterine leiomyoma (ULM) tissues combined resulted in the quantitation of 62 pAIMs that correlate with self-described race and genotype-confirmed patient ancestry. Candidates include a D451E substitution in GC vitamin D-binding protein previously associated with altered vitamin D levels in African and European populations. These efforts describe a generalized set of markers for proteoancestry assessment that will further support studies investigating the impact of ancestry on the human proteome and how this relates to the pathogenesis of uterine neoplasms.
HostingRepository	PRIDE
AnnounceDate	2022-02-16
AnnouncementXML	Submission_2022-02-16_11:09:06.435.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Brian Hood
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue
Instrument	Orbitrap Fusion Lumos; Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2021-10-25 00:38:51	ID requested
⏵ 1	2022-02-16 11:09:07	announced

Bateman NW, Tarney CM, Abulez TS, Hood BL, Conrads KA, Zhou M, Soltis AR, Teng PN, Jackson A, Tian C, Dalgard CL, Wilkerson MD, Kessler MD, Goecker Z, Loffredo J, Shriver CD, Hu H, Cote M, Parker GJ, Segars J, Al-Hendy A, Risinger JI, Phippen NT, Casablanca Y, Darcy KM, Maxwell GL, Conrads TP, O'Connor TD, Peptide ancestry informative markers in uterine neoplasms from women of European, African, and Asian ancestry. iScience, 25(1):103665(2022) [pubmed]

submitter keyword: Uterine Leiomyoma, Fibroid, Endometrial Cancer Cell Line, TMT-10, TMT-11, Quantitative Proteomics

Nicholas W. Bateman, PhD
contact affiliation	Gynecologic Cancer Center of Excellence (GYN-COE), HJF, John P. Murtha Cancer Center, Walter Reed National Military Medical Center, Assistant Professor of Gynecologic Surgery and Obstetrics, Uniformed Services University of the Health Sciences
contact email	batemann@whirc.org
lab head
Brian Hood
contact affiliation	Women's Health Integrated Research Center
contact email	hoodb@whirc.org
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD029323
     1. Label: PRIDE project
     2. Name: Peptide Ancestry Informative Markers in Uterine Neoplasms from Women of European, African and Asian Ancestry