PXD037946

PXD037946 is an original dataset announced via ProteomeXchange.

Title	Pan-cancer plasma proteome profiling using SIS recombinant protein fragments reveals downregulation of proteins interacting with immunoglobulins in multiple myeloma
Description	Mass spectrometry based on Data Independent Acquisition (DIA) strategies has developed into powerful tools suitable for precision medicine applications. Assays performed in this setting provide confident protein identification and precise quantification on an absolute scale when combined with stable isotope recombinant protein standards. Here, we describe a comprehensive targeted proteomics approach to profile a pan-cancer cohort consisting of 1,800 blood plasma samples representing 15 different types of cancer. Using liquid biopsies, 253 proteins were absolutely quantified in multiplex. The targeted method resulted in a low intra-assay variability (CV 17.2%) and a total of 1,013 peptides were quantified across almost two thousand injections. The study identified several protein targets as potential biomarker panel for the diagnosis of multiple myeloma patients using differential expression analysis and machine learning. The combination of multiple markers, including the complement complex C1, JCHAIN and CD5L, resulted in an accurate predictive model with an AUC of 0.96 for the identification of multiple myeloma patients across a cohort of various cancer patients.
HostingRepository	PanoramaPublic
AnnounceDate	2024-07-03
AnnouncementXML	Submission_2024-07-03_19:10:30.143.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	David Kotol
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationList	Carbamidomethyl; Label:13C(6)15N(2); Label:13C(6)15N(4)
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2022-11-03 19:06:56	ID requested
⏵ 1	2024-07-03 19:10:31	announced

Kotol D, Woessmann J, Hober A, Á, lvez MB, Tran Minh KH, Pont, é, n F, Fagerberg L, Uhl, é, n M, Edfors F, Absolute Quantification of Pan-Cancer Plasma Proteomes Reveals Unique Signature in Multiple Myeloma. Cancers (Basel), 15(19):(2023) [pubmed]

submitter keyword: Targeted Proteomics, Cancer, Plasma Profiling, Multiple Myeloma

Fredrik Edfors
contact affiliation	KTH Royal Institute of Technology, Division of Systems Biology, Department of Protein Science, School of Chemistry, Biotechnology and Health, Stockholm, Sweden
contact email	fredrik.edfors@scilifelab.se
lab head
David Kotol
contact affiliation	KTH Royal Institute of Technology, Division of Systems Biology, Department of Protein Science, School of Chemistry, Biotechnology and Health, Stockholm, Sweden
contact email	david.kotol@scilifelab.se
dataset submitter

Panorama Public dataset URI