scholarly journals In vitro Kinase-to-Phosphosite database (iKiP-DB) predicts kinase activity in phosphoproteomic datasets

2022 ◽  
Author(s):  
Tommaso Mari ◽  
Kristin Moesbauer ◽  
Emanuel Wyler ◽  
Markus Landthaler ◽  
Christian Drosten ◽  
...  

Phosphoproteomics routinely quantifies changes in the levels of thousands of phosphorylation sites, but functional analysis of such data remains a major challenge. While databases like PhosphoSitePlus contain information about many phosphorylation sites, the vast majority of known sites are not assigned to any protein kinase. Assigning changes in the phosphoproteome to the activity of individual kinases therefore remains a key challenge.. A recent large-scale study systematically identified in vitro substrates for most human protein kinases. Here, we reprocessed and filtered these data to generate an in vitro Kinase-to-Phosphosite database (iKiP-DB). We show that iKiP-DB can accurately predict changes in kinase activity in published phosphoproteomic datasets for both well-studied and poorly characterized kinases. We apply iKiP-DB to a newly generated phosphoproteomic analysis of SARS-CoV-2 infected human lung epithelial cells and provide evidence for coronavirus-induced changes in host cell kinase activity. In summary, we show that iKiP-DB is widely applicable to facilitate the functional analysis of phosphoproteomic datasets.

2010 ◽  
Vol 242 (1) ◽  
pp. 100-108 ◽  
Author(s):  
Ralph Feltens ◽  
Iljana Mögel ◽  
Carmen Röder-Stolinski ◽  
Jan-Christoph Simon ◽  
Gunda Herberth ◽  
...  

2010 ◽  
Vol 196 ◽  
pp. S164
Author(s):  
M. Könczöl ◽  
R. Gminski ◽  
E. Goldenberg ◽  
S. Ebeling ◽  
I. Merfort ◽  
...  

2007 ◽  
Vol 101 (6) ◽  
pp. 1155-1162 ◽  
Author(s):  
G. Mazzarella ◽  
F. Ferraraccio ◽  
M.V. Prati ◽  
S. Annunziata ◽  
A. Bianco ◽  
...  

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