PXD027439

PXD027439 is an original dataset announced via ProteomeXchange.

Title	High temporal resolution proteome and phosphoproteome profiling of stem cell-derived hepatocyte development
Description	Primary human hepatocytes are widely used to evaluate liver toxicity of drugs, but they are scarce and demanding to culture. Stem cell-derived hepatocytes are increasingly discussed as alternatives. To obtain a better appreciation of the molecular processes during the differentiation of induced pluripotent stem cells into hepatocytes, we employ a quantitative proteomic approach to follow the expression of 9,000 proteins, 12,000 phosphorylation sites, and 800 acetylation sites over time. The analysis reveals stage-specific markers, a major molecular switch between hepatic endoderm versus immature hepatocyte-like cells impacting e.g. metabolism, the cell cycle, kinase activity, and the expression of drug transporters. Comparing the proteomes of 2D and 3D-derived hepatocytes to fetal and adult liver, indicate a fetal-like status of the in vitro models and lower expression of important ADME/Tox proteins. The collective data enable constructing a molecular roadmap of hepatocyte development that serve as a valuable resource for future research.
HostingRepository	PRIDE
AnnounceDate	2022-04-01
AnnouncementXML	Submission_2022-04-01_03:59:35.071.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Johannes Krumm
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	phosphorylated residue; acetylated residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2021-07-20 06:50:54	ID requested
⏵ 1	2022-04-01 03:59:35	announced

Krumm J, Sekine K, Samaras P, Brazovskaja A, Breunig M, Yasui R, Kleger A, Taniguchi H, Wilhelm M, Treutlein B, Camp JG, Kuster B, High temporal resolution proteome and phosphoproteome profiling of stem cell-derived hepatocyte development. Cell Rep, 38(13):110604(2022) [pubmed]

submitter keyword: Hepatocyte differentiation, 2D versus 3D differentiation, phosphoproteomics, stem cell-derived organoids, quantitative mass spectrometry

Bernhard Kuster
contact affiliation	Chair of Proteomics and Bioanalytics, TU Munich, Germany
contact email	kuster@tum.de
lab head
Johannes Krumm
contact affiliation	Chair of Proteomics and Bioanalytics, TU Munich
contact email	johannes.krumm@tum.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/2022/04/PXD027439

PRIDE project URI

• PRIDE
  1. PXD027439
     1. Label: PRIDE project
     2. Name: High temporal resolution proteome and phosphoproteome profiling of stem cell-derived hepatocyte development