PXD016076

PXD016076 is an original dataset announced via ProteomeXchange.

Title	A Comparison of Proteomic, Genomic, and Osteological Methods of Archaeological Sex Estimation
Description	Proteomic sex estimation of human remains via liquid chromatography tandem mass spectrometry (LC- MS/MS) of sexually dimorphic amelogenin peptides in tooth enamel. The human remains analyzed in this study were recovered from two archaeological sites, Síi Túupentak (CA-ALA-565; ca. 200-600 cal BP) and Rummey Ta Kuččuwiš Tiprectak (CA-ALA-704/H; ca. 180-2240 cal. BP), Late Holocene ancestral Ohlone villages in Central California. The X and Y chromosomes code for distinctive isoforms of amelogenin proteins, AMELX_HUMAN and AMELY_HUMAN. Fragments of these proteins can be detected using shotgun liquid chromatography mass spectrometry and assigned to the AMELX or AMELY isoform. We use nano-liquid chromatography coupled with orbitrap tandem mass spectrometry (LC-orbitrap-MS/MS). Signals of all peptides that can be unambiguously attributed to either AMELY or AMELX isoforms are summed and normalized for sample weight. Confident detection of AMELY specific peptides provides an unambiguous indicator of a male sex chromosome.
HostingRepository	PRIDE
AnnounceDate	2020-07-20
AnnouncementXML	Submission_2020-07-19_21:48:55.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Glendon Parker
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2019-10-30 02:54:15	ID requested
⏵ 1	2020-07-19 21:48:56	announced

Buonasera T, Eerkens J, de Flamingh A, Engbring L, Yip J, Li H, Haas R, DiGiuseppe D, Grant D, Salemi M, Nijmeh C, Arellano M, Leventhal A, Phinney B, Byrd BF, Malhi RS, Parker G, A comparison of proteomic, genomic, and osteological methods of archaeological sex estimation. Sci Rep, 10(1):11897(2020) [pubmed]

submitter keyword: Sex Estimation, Proteomics, Ancient DNA, Amelogenin, Biomolecular Archaeology, Archaeoforensics

Glendon J Parker
contact affiliation	University of California, Davis
contact email	gjparker@ucdavis.edu
lab head
Glendon Parker
contact affiliation	UC Davis
contact email	gjparker@ucdavis.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD016076
     1. Label: PRIDE project
     2. Name: A Comparison of Proteomic, Genomic, and Osteological Methods of Archaeological Sex Estimation