⮝ Full datasets listing

PXD025054

PXD025054 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleLC-MSMS study of hiPSC-derived β-like cells in different 3D Eevironments
DescriptionIn this project hiPSC-derived β-like cells were studied in two different 3D enviromnets; size-adjusted cell aggregates (using Aggrewell™ plates) and inside alginate capsules. The hiPSC derived from a patient with maturity-onset diabetes of the young 1 (MODY1), which is a monogenic diabetes form, caused by a mutation in the HNF4A gene. We also generated and included a CRISPR/cas9 corrected isogenic control line. Human islets were also included as positive control. In the data analysis we compared to proteome of the cells in 3D environments compared to the frat 2D enviromnet. We found HNF4A mutation specific effects with both distinct 3D environments, where the cells are challenged differentially in term of oxygen, nutrient supply and cell-to-cell contact. We identified HNF4A mutation-specific phenotypes, including a unique proteome signature suggesting metabolic changes in the alginate bead environment, and mutation-specific cellular phenotypes and a unique proteome signature in the aggregation environment.
HostingRepositoryPRIDE
AnnounceDate2022-05-20
AnnouncementXMLSubmission_2022-05-19_22:30:08.600.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterYngvild Bjoerlykke
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListmonohydroxylated residue; iodoacetamide derivatized residue
InstrumentOrbitrap Fusion
Dataset History
RevisionDatetimeStatusChangeLog Entry
02021-03-29 02:45:08ID requested
12022-05-19 22:30:09announced
Publication List
Carrasco M, Wang C, S, ø, viknes AM, Bj, ø, rlykke Y, Abadpour S, Paulo JA, Tjora E, Nj, ø, lstad P, Ghabayen J, Nermoen I, Lyssenko V, Chera S, Ghila LM, Vaudel M, Scholz H, R, æ, der H, -Like Cells. Diabetes, 71(4):862-869(2022) [pubmed]
Keyword List
submitter keyword: NF4A, CRISPR/cas9, MODY1, hiPSC, β-cell differentiation, alginate encapsulation, cell aggregates, global proteomics, TMT quantification
Contact List
Helge Raeder
contact affiliationUniversity of Bergen, Department of Clinical Medicine, Norway
contact emailHelge.Rader@uib.no
lab head
Yngvild Bjoerlykke
contact affiliationUniversity of Bergen
contact emailyngvild.bjorlykke@gmail.com
dataset submitter
Full Dataset Link List
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/2022/05/PXD025054
PRIDE project URI
Repository Record List
[ + ]