PXD002235 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Comparative proteomic analysis of human liver tissue and isolated hepatocytes with a focus on proteins determining drug exposure |
Description | Freshly isolated human hepatocytes are considered the gold standard for in vitro studies of liver functions, including drug transport, metabolism, and toxicity. For accurate predictions of in vivo outcome, the isolated hepatocytes should reflect the phenotype of their in vivo counterpart, i.e., hepatocytes in human liver tissue. Here, we quantified and compared the membrane proteomes of freshly isolated hepatocytes and human liver tissue using a label-free shotgun proteomics approach. A total of 5144 unique proteins were identified, spanning over six orders of magnitude in abundance. There was a good global correlation in protein abundance. However, the expression of many plasma membrane proteins was lower in the isolated hepatocytes than in the liver tissue. This included transport proteins that determine hepatocyte exposure to many drugs and endogenous compounds. Pathway analysis of the differentially expressed proteins confirmed that hepatocytes are exposed to oxidative stress during isolation and suggested that plasma membrane proteins were degraded via the protein ubiquitination pathway. Finally, using pitavastatin as an example, we show how protein quantifications can improve in vitro predictions of in vivo liver clearance. We tentatively conclude that our data set will be a useful source for improved hepatocyte predictions of in vivo outcome. |
HostingRepository | PRIDE |
AnnounceDate | 2015-07-17 |
AnnouncementXML | Submission_2015-07-20_05:31:26.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Jacek Wisniewski |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | No PTMs are included in the dataset |
Instrument | LTQ Orbitrap Velos |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2015-05-27 00:22:25 | ID requested | |
1 | 2015-07-16 19:31:56 | announced | |
⏵ 2 | 2015-07-20 05:31:27 | announced | Updated publication reference for PubMed record(s): 26167961. |
Publication List
Vildhede A, Wi, ś, niewski JR, Nor, é, n A, Karlgren M, Artursson P, Comparative Proteomic Analysis of Human Liver Tissue and Isolated Hepatocytes with a Focus on Proteins Determining Drug Exposure. J Proteome Res, 14(8):3305-14(2015) [pubmed] |
Keyword List
curator keyword: Biomedical |
submitter keyword: Human liver, human hepatocyte, FASP, ADME proteins |
Contact List
Jacek R Wisniewski |
contact affiliation | Max Planck Institute of Biochemistry, Martinsried, Germany |
contact email | jwisniew@biochem.mpg.de |
lab head | |
Jacek Wisniewski |
contact affiliation | Proteomics |
contact email | jwisniew@biochem.mpg.de |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD002235
- Label: PRIDE project
- Name: Comparative proteomic analysis of human liver tissue and isolated hepatocytes with a focus on proteins determining drug exposure