PXD028274

PXD028274 is an original dataset announced via ProteomeXchange.

Title	Matrix and sampling effects on quantification of protein biomarkers of drug-induced liver injury
Description	Macrophage Colony Stimulating Factor 1 Receptor (MCSF1R), Osteopontin (OPN), High mobility group protein B1 (HMGB1), Glutamate Dehydrogenase (GLDH), Keratin 18 (K18), and caspase-cleaved Keratin 18 (ccK18) are considered promising mechanistic biomarkers for the diagnosis of drug-induced liver injury (DILI). Here, we aim to elucidate the impact of sample matrix and handling on the quantification of these emerging protein biomarkers. We investigated effects such as time to centrifugation during serum (±gel) or EDTA plasma separation on two assay platforms - immunoaffinity liquid chromatography mass spectrometric assays and sandwich immunoassays. Furthermore, we measured GLDH activity with an enzymatic activity assay. Matrix effects were observed particularly for HMGB1 and MCSF1R. HMGB1 levels were higher in serum than in plasma, whereas higher concentrations of MCSF1R were observed in plasma than in serum. A comparison of sample collection to centrifugation time ranging from 15 min to 60 min demonstrated increasing levels of HMGB1 in serum, while MCSF1R, OPN, GLDH, and ccK18 concentrations remained stable. Additionally, there was a poor correlation in HMGB1 and ccK18 levels between serum and plasma. Considering the observed matrix effects, we recommend plasma as matrix of choice and cross-study comparison studies to be limited to those using the same matrix.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:53:10.510.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Viktoria Anselm
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2021-09-09 08:09:36	ID requested
1	2021-11-17 05:11:48	announced
⏵ 2	2023-11-14 08:53:10	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

submitter keyword: immunoassay, mass spectrometry, serum gel, serum, plasma,Drug-induced liver injury, centrifugation, preanalytical effects

Dr Oliver Poetz
contact affiliation	SIGNATOPE GmbH, Reutlingen, Germany
contact email	poetz@signatope.com
lab head
Viktoria Anselm
contact affiliation	Signatope GmbH, Markwiesenstr. 55 72770 Reutlingen
contact email	mail@v-anselm.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/2021/11/PXD028274

PRIDE project URI

• PRIDE
  1. PXD028274
     1. Label: PRIDE project
     2. Name: Matrix and sampling effects on quantification of protein biomarkers of drug-induced liver injury