PXD056316-1

PXD056316 is an original dataset announced via ProteomeXchange.

Title	Protein ‘Purity’, Proteoforms, and the Albuminome: Critical Observations on Proteome and Systems Complexity
Description	The identification of effective, selective biomarkers and therapeutics is dependent on truly deep, comprehensive analysis of proteomes at the proteoform level. Using bovine serum albumin (BSA) isolated by two different protocols, cold ethanol fractionation (CEF) and heat shock fractionation (HSF), the data highlight several concerns regarding proteome analyses using currently popular analytical approaches and what it means to purify a ‘protein’ if the isolate consists of a wide variety of proteoforms and/or co-purifying species. Failure to widely recognize and accept proteome complexity has likely delayed the identification of effective biomarkers and new, more selective drug targets. Integrative top-down proteomics (iTDP) is the most logical available analytical technique to effectively provide the necessary critical depth and breadth for complex proteome analyses. Routine analyses at the level of proteoforms will provide the much-needed data for the development and validation of selective biomarkers and drugs, including biologics.
HostingRepository	PRIDE
AnnounceDate	2024-12-07
AnnouncementXML	Submission_2024-12-07_04:52:52.750.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Breyer-Lynne Woodland
SpeciesList	scientific name: Bos taurus (Bovine); NCBI TaxID: 9913;
ModificationList	carboxylated residue; S-carboxamidoethyl-L-cysteine; amidated residue; dehydrated residue; phosphorylated residue; acetylated residue; monohydroxylated residue; formylated residue; iodoacetic acid derivatized residue; deamidated residue
Instrument	Q Exactive Plus

Revision	Datetime	Status	ChangeLog Entry
0	2024-09-27 01:40:01	ID requested
⏵ 1	2024-12-07 04:52:53	announced

Dataset with its publication pending

submitter keyword: proteoforms, therapeutics, two-dimensional gel electrophoresis, tandem mass spectrometry,biomarkers, bovine serum albumin, integrative top-down proteomics

Matt Padula
contact affiliation	Proteomics, Lipidomics and Metabolomics Core Facility, School of Life Sciences, Faculty of Science, University of Technology Sydney, Ultimo, NSW, Australia
contact email	matthew.padula@uts.edu.au
lab head
Breyer-Lynne Woodland
contact affiliation	University of Technology Sydney
contact email	breyer-lynne.woodland@student.uts.edu.au
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/2024/12/PXD056316

PRIDE project URI

• PRIDE
  1. PXD056316
     1. Label: PRIDE project
     2. Name: Protein ‘Purity’, Proteoforms, and the Albuminome: Critical Observations on Proteome and Systems Complexity