PXD050154-1

PXD050154 is an original dataset announced via ProteomeXchange.

Title	Impact of Surfactants on Cumulative Trypsin Activity for Bottom-up Proteome Analysis
Description	Detergents are often employed in bottom-up proteome workflows to maximize total proteome recovery, especially in the interest of membrane proteins. Conventionally, they are depleted prior to digestion, but recent works report enhanced proteolysis of membrane proteins by including denaturants across the whole bottom-up workflow. The present work evaluates initial and cumulative trypsin activity in the presence of denaturants by spectroscopic acitivity assays, followed by a quantitative bottom-up LC-MS assessment of a whole proteome digested in the presence of sodium deoxycholate and sodium dodecyl sulfate. It is shown that the presence of detergents (although important for solubilization) significantly impede digestion efficiency and consequentially, proteome coverage.
HostingRepository	PRIDE
AnnounceDate	2024-04-23
AnnouncementXML	Submission_2024-04-22_17:18:44.624.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jessica Nickerson
SpeciesList	scientific name: Bos taurus (Bovine); NCBI TaxID: 9913;
ModificationList	iodoacetamide derivatized residue
Instrument	LTQ Orbitrap

Revision	Datetime	Status	ChangeLog Entry
0	2024-02-26 08:40:37	ID requested
⏵ 1	2024-04-22 17:18:45	announced
2	2024-10-22 06:37:01	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: Trypsin, Bottom-up, Digestion, Quantitation,Surfactants, Proteomics

Alan A. Doucette
contact affiliation	Department of Chemistry, Dalhousie University
contact email	alan.doucette@dal.ca
lab head
Jessica Nickerson
contact affiliation	Dalhousie University
contact email	jessica.nickerson@dal.ca
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD050154
     1. Label: PRIDE project
     2. Name: Impact of Surfactants on Cumulative Trypsin Activity for Bottom-up Proteome Analysis