PXD015098-2

PXD015098 is an original dataset announced via ProteomeXchange.

Title	Systematic comparison of strategies for the enrichment of lysosomes by data independent acquisition
Description	We describe a comparison of individual approaches for the enrichment of lysosomes comparing four different strategies using data independent acquisition (DIA). As a benchmark, we chose a crude enrichment strategy, which is the centrifugation of the PNS at 20,000 x g termed organelle enriched pellet (OEP), a two-step density gradient centrifugation (SDGC) approach employing sucrose, histodenz, and percoll, the SPIONs approach, which is based on the endocytosis of dextran coated nano-particles and their delivery to the lysosomal compartment, and the TMEM192-HA immunoprecipitation a 3 x HA tagged version of the lysosomal membrane protein TMEM192 used for lysosome isolation by anti-HA antibodies immobilized on magnetic beads. We evaluated the abundance and distributions of lysosomal, as well total proteins, allowing for the determination of lysosomal enrichment among the different strategies.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:50:21.239.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jasjot Singh
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	S-carboxamidoethyl-L-cysteine; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2019-08-20 23:42:23	ID requested
1	2020-01-21 01:44:27	announced
⏵ 2	2024-10-22 04:50:22	announced	2024-10-22: Updated project metadata.

Singh J, Kaade E, Muntel J, Bruderer R, Reiter L, Thelen M, Winter D, Systematic Comparison of Strategies for the Enrichment of Lysosomes by Data Independent Acquisition. J Proteome Res, 19(1):371-381(2020) [pubmed]

10.1021/acs.jproteome.9b00580;

curator keyword: Technical

submitter keyword: enrichment methods,Lysosomes, data independent acquisition (DIA)

Dominic Winter
contact affiliation	Institute for Biochemistry and Molecular Biology, University of Bonn
contact email	dwin@uni-bonn.de
lab head
Jasjot Singh
contact affiliation	University of Bonn
contact email	jasjotsingh@web.de
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/2020/01/PXD015098

PRIDE project URI

• PRIDE
  1. PXD015098
     1. Label: PRIDE project
     2. Name: Systematic comparison of strategies for the enrichment of lysosomes by data independent acquisition