PXD034025 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Analysis of proteotype, cell growth and metabolic changes induced by caspase-9 inhibition in chondrogenic cells |
Description | Caspase-9 is the major apical caspase responsible for triggering the intrinsic apoptotic pathway. Our pilot study indicated that specific inhibition of caspase-9 caused microscopically evident alterations in appearance of the primary chondrogenic cultures which cannot be explained by decrease in apoptosis. In order to search for the complex molecular background of the effect, proteomics analysis after caspase-9 inhibition was performed. A selective fluoromethylketone inhibitor was applied to inhibit caspase-9 in the chondrogenic cultures. In this PRIDE project we present three LC-MS datasets: i) diaPASEF data obtained using timsTOF Pro LC-MS system; ii) iTRAQ-2DLC-MS3 dataset; and iii) conventional LC-DIA-MS dataset, both measured on Orbitrap Lumos. In this project we demonstrate superiority of the diaPASEF method offering better proteome coverage. |
HostingRepository | PRIDE |
AnnounceDate | 2023-11-14 |
AnnouncementXML | Submission_2023-11-14_08:44:35.458.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Pavel Bouchal |
SpeciesList | scientific name: Mus musculus (Mouse); NCBI TaxID: 10090; |
ModificationList | methylthiolated residue |
Instrument | timsTOF Pro; Orbitrap Fusion Lumos |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2022-05-23 03:29:54 | ID requested | |
⏵ 1 | 2023-11-14 08:44:41 | announced | |
Publication List
Lapcik P, Vesela B, Potesil D, Dadakova K, Zapletalova M, Benes P, Bouchal P, Matalova E, DiaPASEF proteotype analysis indicates changes in cell growth and metabolic switch induced by caspase-9 inhibition in chondrogenic cells. Proteomics, 23(11):e2200408(2023) [pubmed] |
Keyword List
submitter keyword: metabolism, proteomics, MS3, DIA, chondrogenesis,diaPASEF, caspase-9, micromass cultures, iTRAQ |
Contact List
Pavel Bouchal |
contact affiliation | Masaryk University, Faculty of Science, Department of Biochemistry |
contact email | bouchal@chemi.muni.cz |
lab head | |
Pavel Bouchal |
contact affiliation | Masaryk University, Faculty of Science |
contact email | bouchal@chemi.muni.cz |
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/2023/04/PXD034025 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD034025
- Label: PRIDE project
- Name: Analysis of proteotype, cell growth and metabolic changes induced by caspase-9 inhibition in chondrogenic cells