PXD020191

PXD020191 is an original dataset announced via ProteomeXchange.

Title	Human Lung cancer proteomics and proteogenomics LC/MS&MS
Description	In this project, a cohort of early stage NSCLC samples (141) were analyzed by MS-based proteomics in order to identify molecular subtypes at the phenotype level. In total, close to 14 000 proteins were identified and quantified across samples by HiRIEF-LC-MS and TMT based relative quantification. Further, six identified NSCLC proteome subtypes were investigated in relation to cancer driver pathways, immune phenotypes and neoantigen expression based on the generated MS-data.
HostingRepository	PRIDE
AnnounceDate	2021-12-15
AnnouncementXML	Submission_2022-01-19_06:30:42.356.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Georgios Mermelekas
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2020-07-03 17:21:06	ID requested
1	2021-12-15 11:10:11	announced
⏵ 2	2022-01-19 06:32:53	announced	2022-01-19: Updated publication reference for PubMed record(s): 34870237.

Lehti, ö J, Arslan T, Siavelis I, Pan Y, Socciarelli F, Berkovska O, Umer HM, Mermelekas G, Pirmoradian M, J, ö, nsson M, Brunnstr, ö, m H, Brustugun OT, Purohit KP, Cunningham R, Foroughi Asl H, Isaksson S, Arbajian E, Aine M, Karlsson A, Kotevska M, Gram Hansen C, Drageset Haakensen V, Helland Å, Tamborero D, Johansson HJ, Branca RM, Planck M, Staaf J, Orre LM, Proteogenomics of non-small cell lung cancer reveals molecular subtypes associated with specific therapeutic targets and immune evasion mechanisms. Nat Cancer, 2(11):1224-1242(2021) [pubmed]

submitter keyword: proteomics, proteogenomics, lung cancer, adenocarcinoma,

Janne Lehtiö
contact affiliation	Dept. Oncology-Pathology, Scilifelab, Karolinska Institutet, Stockholm, Sweden
contact email	janne.lehtio@ki.se
lab head
Georgios Mermelekas
contact affiliation	Karolinska Institutet
contact email	georgios.mermelekas@scilifelab.se
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/2021/12/PXD020191

PRIDE project URI

• PRIDE
  1. PXD020191
     1. Label: PRIDE project
     2. Name: Human Lung cancer proteomics and proteogenomics LC/MS&MS