PXD039005-1

PXD039005 is an original dataset announced via ProteomeXchange.

Title	Elucidating Fibroblast Growth Factor-induced kinome dynamics using targeted mass spectrometry and dynamic modeling
Description	Fibroblast growth factors (FGFs) are paracrine or endocrine signaling proteins that when activated by their ligands, can elicit a wide range of healthy and disease-related processes such as cell proliferation and the epithelial-to-mesenchymal transition (EMT). The detailed molecular pathway dynamics that coordinate these responses have remained unclear. To elucidate and monitor these dynamics, we stimulated MCF-7 breast cancer cells with either FGF2, 3, 4, 10, or 19. Following activation of the receptor, we quantified the kinase activity dynamics of 44 kinases using a targeted mass spectrometry assay. Our system-wide kinase activity data, supplemented with (phopsho)proteomics data, reveal ligand-dependent distinct pathway dynamics, elucidate the involvement of not earlier reported kinases such as MARK, and revise some of the pathway effects on biological outcomes. In addition, logic-based dynamic modeling of the kinome dynamics further verifies the biological goodness-of-fit of the predicted models and reveals tight regulation of the RAF kinase family.
HostingRepository	PanoramaPublic
AnnounceDate	2023-07-02
AnnouncementXML	Submission_2023-07-02_08:29:49.237.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Tim Veth
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationList	Phospho; Carbamidomethyl; Oxidation; Label:13C(6)15N(2); Label:13C(6)15N(4); Label:13C(6)15N(1); Label:13C(5)15N(1)
Instrument	TSQ Altis

Revision	Datetime	Status	ChangeLog Entry
0	2022-12-20 22:25:23	ID requested
⏵ 1	2023-07-02 08:29:50	announced

Veth TS, Francavilla C, Heck AJR, Altelaar M, Elucidating Fibroblast Growth Factor-Induced Kinome Dynamics Using Targeted Mass Spectrometry and Dynamic Modeling. Mol Cell Proteomics, 22(8):100594(2023) [pubmed]

submitter keyword: Phosphoproteomics, kinase, targeted mass spectrometry, kinase dynamics, fibroblast growth factors, dynamic modeling, fibroblast growth factor receptor, breast cancer.

Maarten Altelaar
contact affiliation	Utrecht University, Netherlands Proteomics Center
contact email	m.altelaar@uu.nl
lab head
Tim Veth
contact affiliation	Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, University of Utrecht. Netherlands Proteomics Center.
contact email	t.s.veth@uu.nl
dataset submitter

Panorama Public dataset URI