PXD011665

PXD011665 is an original dataset announced via ProteomeXchange.

Title	Suspension trapping (S-trap) is compatible with typical protein extraction buffers and detergents for bottom up proteomics
Description	Analysis of cells and tissue by bottom up proteomics starts with lysis, followed by in-solution digestion. Lysis buffers commonly used include detergents and other reagents for efficient solubility of the proteins. However these reagents are, for the most part, incompatible with downstream analytical instrumentation. One method for in-solution digestion and cleanup, termed Suspension Trapping (S-Trap), has been recently introduced. We present evaluation of the compatibility of commonly used lysis buffers with S-trap: SDS, urea, NP-40, RIPA and SDS with DTT (SDT). We show that S-trap is compatible with all the tested buffers, with SDS and SDT performing the best. Based on this data, we anticipate that the method will transform experimental planning for mass spectrometry based proteomics, making it far more flexible and tolerable of various lysis buffers.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:47:04.493.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yishai Levin
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-11-12 06:34:16	ID requested
1	2019-02-28 10:07:28	announced
⏵ 2	2024-10-22 04:47:06	announced	2024-10-22: Updated project metadata.

10.1021/acs.jproteome.8b00891;

Elinger D, Gabashvili A, Levin Y, Suspension Trapping (S-Trap) Is Compatible with Typical Protein Extraction Buffers and Detergents for Bottom-Up Proteomics. J Proteome Res, 18(3):1441-1445(2019) [pubmed]

submitter keyword: Q Eaxctive HF, lysis,Proteomics, HeLa, S-trap

Yishai Levin
contact affiliation	The Nancy and Stephen Grand Israel National Center for Personalised Medicine Weizmann Institute of Science
contact email	yishai.levin@weizmann.ac.il
lab head
Yishai Levin
contact affiliation	Weizmann Institute of Science, Israel
contact email	yishai.levin@gmail.com
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/2019/02/PXD011665

PRIDE project URI

• PRIDE
  1. PXD011665
     1. Label: PRIDE project
     2. Name: Suspension trapping (S-trap) is compatible with typical protein extraction buffers and detergents for bottom up proteomics