PXD010237

PXD010237 is an original dataset announced via ProteomeXchange.

Title	S-Trap is an ultrafast sample preparation approach for shotgun proteomics
Description	The success of shotgun proteomic analysis depends largely on how samples are prepared. Current approaches such as gel-, solution- or filter-based, although being extensively employed in the field, are time-consuming and less effective with respect to the repetitive sample processing, recovery, and overall yield. As an alternative, suspension trapping (S-Trap) filter is commercially available very recently in the format of single or 96-well filter plate. In contrast to conventional filter aided sample preparation (FASP) approach, which utilizes a molecular weight cutoff (MWCO) membrane as the filter and requires hours of processing before digestion-ready proteins can be obtained, S-Trap employs a three-dimensional porous material as filter media, and traps particulate protein suspension with subsequent depletion of interfering substances and in-filter digestion. Due to the large (sub-micron) pore size, each centrifugation cycle of S-Trap filter only takes around 1 minute, which significantly reduces the total processing time from approximately 3 hours by FASP to less than 15 minutes, suggesting an ultrafast sample preparation approach for shotgun proteomics. Here, for the first time, we comprehensively evaluate the performance of individual S-Trap filter and 96-well filter plate in the context of global protein identification and quantitation using whole cell lysate and clinically relevant sputum samples.
HostingRepository	PRIDE
AnnounceDate	2019-03-28
AnnouncementXML	Submission_2019-03-28_13:59:12.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yanbao Yu
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-06-26 23:52:55	ID requested
⏵ 1	2019-03-28 13:59:13	announced

HaileMariam M, Eguez RV, Singh H, Bekele S, Ameni G, Pieper R, Yu Y, S-Trap, an Ultrafast Sample-Preparation Approach for Shotgun Proteomics. J Proteome Res, 17(9):2917-2924(2018) [pubmed]

curator keyword: Technical, Biomedical

submitter keyword: Proteomics

Sample preparation

FASP

Suspension Trapping

Klebsiella pneumoniae

Sputum

Tuberculosis.

Yanbao Yu
contact affiliation	J. Craig Venter Institute, 9605 Medical Center Drive, Rockville, Maryland
contact email	yayu@jcvi.org
lab head
Yanbao Yu
contact affiliation	J. Craig Venter Institute
contact email	yayu@jcvi.org
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/2019/03/PXD010237

PRIDE project URI

• PRIDE
  1. PXD010237
     1. Label: PRIDE project
     2. Name: S-Trap is an ultrafast sample preparation approach for shotgun proteomics