PXD046969

PXD046969 is an original dataset announced via ProteomeXchange.

Title	Successive protein extraction using hydroxylamine to increase the depth of proteome coverage in fresh, forensic and archaeological bones
Description	Proteomics is continually being applied to a wider range of applications, now including the analysis of archaeological samples and anatomical specimens, in particular, collagen-containing tissues such as bones and teeth. Here we present the application of a chemi-cal digestion-based proteomics sample preparation protocol to the analysis of fresh, anatomical and archaeological samples. We are describing and discussing two protocols, one using hydroxylamine as an additional step of the proteomic workflow, applied to the insoluble fraction, and another focusing directly on demineralized bones and teeth. We demonstrate the additional information that can be extracted using both protocols, including increasing the sequence coverage and number of peptides detected in modern and archaeological samples, and increasing the number of proteins identified in archaeological samples. Targeting research related to collagens or extracellular matrix proteins, the use of this protocol will open new insights considering both fresh and ancient mineral-ized samples.
HostingRepository	PRIDE
AnnounceDate	2024-03-28
AnnouncementXML	Submission_2024-03-27_21:07:10.358.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Catherine Gilbert
SpeciesList	scientific name: Bos taurus (Bovine); NCBI TaxID: 9913; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Eclipse

Revision	Datetime	Status	ChangeLog Entry
0	2023-11-14 18:22:41	ID requested
⏵ 1	2024-03-27 21:07:10	announced

10.1021/ACS.ANALCHEM.3C02803;

submitter keyword: hydroxylamine, collagen, archaeology, chemical digestion

Caroline Tokarski
contact affiliation	Univ. Bordeaux, CNRS, Bordeaux INP, CBMN, UMR 5248, Bordeaux Proteome, F-33600 Pessac, France
contact email	caroline.tokarski@u-bordeaux.fr
lab head
Catherine Gilbert
contact affiliation	Université de Bordeaux
contact email	catherine.gilbert@u-bordeaux.fr
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2024/03/PXD046969

PRIDE project URI

• PRIDE
  1. PXD046969
     1. Label: PRIDE project
     2. Name: Successive protein extraction using hydroxylamine to increase the depth of proteome coverage in fresh, forensic and archaeological bones