PXD014751

PXD014751 is an original dataset announced via ProteomeXchange.

Title	Comparative proteomics of liver and plasma on the CDAA rat NASH model
Description	Nonalcoholic steatohepatitis (NASH) is a major cause of liver fibrosis with increasing prevalence worldwide. Currently there are no approved drugs available. The development of new therapies is difficult as diagnosis and staging requires biopsies. Consequently, predictive plasma biomarkers would be useful for drug development. To identify new plasma biomarkers in a choline-deficient L-amino acid-defined diet rat NASH model we analyzed liver and plasma samples by proteomics, revealing disease relevant signatures and a high correlation between liver mRNA and protein changes. We developed a multi-dimensional attribute ranking approach integrating multi-omics data with liver histology and prior knowledge uncovering known human markers, but also novel candidates. Using regression analysis, we show that the top-ranked plasma markers were highly predictive for fibrosis in our model and hence can serve as preclinical plasma biomarkers. Our approach presented here illustrates the power of multi-omics analyses combined with plasma proteomics and is readily applicable to human biomarker discovery.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:58:40.649.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Daniel Veyel
SpeciesList	scientific name: Rattus norvegicus (Rat); NCBI TaxID: 10116;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; phosphorylated residue; monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2019-07-25 01:57:03	ID requested
1	2020-01-28 04:36:31	announced
2	2020-02-04 02:28:03	announced	2020-02-04: Updated publication reference for PubMed record(s): 31992752.
3	2020-02-17 03:22:41	announced	2020-02-04: Updated publication reference for PubMed record(s): 31992752. 2020-02-17: Updated publication reference for PubMed record(s): 31992752.
⏵ 4	2024-10-22 04:58:47	announced	2024-10-22: Updated project metadata.

10.1038/s41598-020-58030-6;

Veyel D, Wenger K, Broermann A, Bretschneider T, Luippold AH, Krawczyk B, Rist W, Simon E, Biomarker discovery for chronic liver diseases by multi-omics - a preclinical case study. Sci Rep, 10(1):1314(2020) [pubmed]

submitter keyword: LC-MSMS, Plasma,Han Wistar rat, Liver

Wolfgang Rist
contact affiliation	Boehringer Ingelheim Pharma GmbH & Co. KG, Drug Discovery Sciences
contact email	wolfgang.rist@boehringer-ingelheim.com
lab head
Daniel Veyel
contact affiliation	Boehringer Ingelheim Pharma GmbH & Co. KG
contact email	daniel.veyel@boehringer-ingelheim.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/2020/01/PXD014751

PRIDE project URI

• PRIDE
  1. PXD014751
     1. Label: PRIDE project
     2. Name: Comparative proteomics of liver and plasma on the CDAA rat NASH model