PXD034175

PXD034175 is an original dataset announced via ProteomeXchange.

Title	Discovering biomarkers for non-alcoholic steatohepatitis pa-tients with and without hepatocellular carcinoma using fecal metaproteomics
Description	High-calorie diets lead hepatic steatosis and to the development of non-alcoholic fatty liver disease (NAFLD), which can evolve over many years into the inflammatory form non-alcoholic steatohepatits (NASH) posing a risk for the development of hepatocellular carcinoma (HCC). Due to the diet and the liver alteration, the axis between liver and gut is disturbed, resulting in gut microbiome alterations. Consequently, detecting these gut microbiome alterations repre-sents a promising strategy for early NASH and HCC detection. We analyzed medical parame-ters and the fecal metaproteome of 19 healthy controls, 32 NASH, and 29 HCC patients target-ing the discovery of diagnostic biomarkers. Here, NASH and HCC resulted in increased in-flammation status and shifts within the composition of the gut microbiome. Increased abun-dance of kielin/chordin, E3 ubiquitin ligase, and nucleophosmin 1 represented valuable fecal biomarkers indicating disease-related changes in the liver. Whereas a single biomarker failed to separate NASH and HCC, machine learning-based classification algorithms provided 0.86% accuracy in distinguishing between controls, NASH, and HCC. Conclusion: Fecal metaproteomics enables early detection of NASH and HCC by providing single biomarkers and ma-chine learning-based metaprotein panels.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_07:59:33.168.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Robert Heyer
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2022-05-29 13:42:53	ID requested
1	2022-10-13 08:24:52	announced
⏵ 2	2023-11-14 07:59:34	announced	2023-11-14: Updated project metadata.

Sydor S, Dandyk C, Schwerdt J, Manka P, Benndorf D, Lehmann T, Schallert K, Wolf M, Reichl U, Canbay A, Bechmann LP, Heyer R, Discovering Biomarkers for Non-Alcoholic Steatohepatitis Patients with and without Hepatocellular Carcinoma Using Fecal Metaproteomics. Int J Mol Sci, 23(16):(2022) [pubmed]

submitter keyword: non-alcoholic steatohepatitis,Metaproteomics, hepatocellular carcinoma, fecal microbiota, ma-chine learning

Dirk Benndorf
contact affiliation	Otto-von-Guericke University Magdeburg
contact email	benndorf@mpi-magdeburg.mpg.de
lab head
Robert Heyer
contact affiliation	OvGU
contact email	heyer@mpi-magdeburg.mpg.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/2022/10/PXD034175

PRIDE project URI

• PRIDE
  1. PXD034175
     1. Label: PRIDE project
     2. Name: Discovering biomarkers for non-alcoholic steatohepatitis pa-tients with and without hepatocellular carcinoma using fecal metaproteomics