PXD013142

PXD013142 is an original dataset announced via ProteomeXchange.

Title	Liver zonation patterns and cell size variability in isolated human hepatocytes
Description	Human hepatocytes differ in gene expression and function across the hexagonal lobules of the tissue microarchitecture, a phenomenon referred to as liver zonation. Hepatocytes also display intra-lobular differences in cell size, but to what extent zonal expression and function correlate with cell size in isolated human hepatocytes is not entirely clear. Here, we first used our accumulated experience of nearly 100 hepatocyte isolations to assess the impact of donor background and process parameters on hepatocyte quality. We observed substantial inter-batch variability in cell size distributions and a tendency for overall cell size to affect the outcome of hepatocyte isolation and cryopreservation. We further separated cells into different size fractions and analyzed them with label-free quantitative proteomics. This showed that protein abundances in different hepatocyte size fractions recapitulated the in vivo expression patterns of well-known zonal markers. We also found that proteins with sequential enrichment across fractions largely represented biological processes with known zonal specificity. This was confirmed by differences in the metabolic activity of zonated CYP enzymes. Altogether, our results show that hepatocyte size corresponds to zonal origin, and that our size fractionation approach can be used to study zone-specific liver functions in vitro.
HostingRepository	PRIDE
AnnounceDate	2021-01-26
AnnouncementXML	Submission_2021-01-26_05:16:08.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Christine Wegler
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2019-03-19 03:23:14	ID requested
⏵ 1	2021-01-26 05:16:09	announced

Ö, lander M, Wegler C, Fl, ö, rkemeier I, Treyer A, Handin N, Pedersen JM, Vildhede A, Mateus A, LeCluyse EL, Urdzik J, Artursson P, Hepatocyte size fractionation allows dissection of human liver zonation. J Cell Physiol, 236(8):5885-5894(2021) [pubmed]

submitter keyword: Human, liver, hepatocytes, zonation, cell size variability

Per Artursson
contact affiliation	Department of Pharmacy, Uppsala University, Uppsala, Sweden
contact email	per.artursson@farmaci.uu.se
lab head
Christine Wegler
contact affiliation	Uppsala University
contact email	christine.wegler@farmaci.uu.se
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/2021/01/PXD013142

PRIDE project URI

• PRIDE
  1. PXD013142
     1. Label: PRIDE project
     2. Name: Liver zonation patterns and cell size variability in isolated human hepatocytes