PXD012317

PXD012317 is an original dataset announced via ProteomeXchange.

Title	Platform independent protein-based cell-of-origin subtyping of diffuse large B-cell lymphoma in formalin-fixed paraffin-embedded tissue
Description	10 µm formalin-fixed paraffin-embedded tissue sections were deparaffinized with xylene; homogenization was performed in lysis-buffer (20 mM Tris-HCl, pH 8.8, 200 mM glycine, 200 mM DTT, 4% SDS)in an ultrasonic bath; samples were incubated under continuous agitation first at 99 °C for 30 min, then at 80 °C for 60 min, afterwards centrifuged at 12,000xg for 10 min. 50 µg of protein lysate were further processed according the GASP (Gel-assisted sample preparation) protocol; peptide identification (IDA, information dependent acquisition) and SWATH measurements by LC-MS/MS on TripleTOF5600 (AB Sciex)
HostingRepository	PRIDE
AnnounceDate	2020-05-18
AnnouncementXML	Submission_2020-05-18_00:17:52.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Katharina Limm
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	S-carboxamidoethyl-L-cysteine
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2019-01-14 03:46:38	ID requested
⏵ 1	2020-05-18 00:17:53	announced

Reinders J, Altenbuchinger M, Limm K, Schwarzfischer P, Scheidt T, Strasser L, Richter J, Szczepanowski M, Huber CG, Klapper W, Spang R, Oefner PJ, Platform independent protein-based cell-of-origin subtyping of diffuse large B-cell lymphoma in formalin-fixed paraffin-embedded tissue. Sci Rep, 10(1):7876(2020) [pubmed]

curator keyword: Biomedical

submitter keyword: DLBCL, lymphoma, cell of origin, proteomics, SWATH-MS

Prof. Dr. Peter Oefner
contact affiliation	Chair of the Department of Functional Genomics Institute of Functional Genomics, University of Regensburg, Am Biopark 9, 93053 Regensburg, Germany ( lab head )
contact email	Peter.Oefner@klinik.uni-regensburg.de
lab head
Katharina Limm
contact affiliation	Institute of Functional Genomics, University Regensburg
contact email	katharina.limm@ur.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/2020/05/PXD012317

PRIDE project URI

• PRIDE
  1. PXD012317
     1. Label: PRIDE project
     2. Name: Platform independent protein-based cell-of-origin subtyping of diffuse large B-cell lymphoma in formalin-fixed paraffin-embedded tissue