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ProteomicsPhosphoproteomics sample preparation impacts biological interpretation of signalling responses
Quantitative data-dependent acquisition phosphoproteomics (DDAP) has revolutionised cell signaling studies. However, the impact of the specific DDAP sample preparation method on the phosphoproteome quantified is unclear as each study quantifies only a fraction of the phosphoproteome. Here, we compar...
ORGANISM(S): Mus musculus (Mouse) 
2021-12-25 | PXD025376 | Pride
Phosphoproteomics Tio2 Mouse High-throughput phosphoproteomics Scxphos Sample preparation Highphos Comparative analysis 
ProteomicsIdentification of CDK9 targets using DRB and quantitative phosphoproteomics
CDK9 is a critical kinase required for the productive transcription of protein-coding genes by RNA polymerase II (pol II) in higher eukaryotes. Phosphorylation of targets including the elongation factor SPT5 and the carboxyl-terminal domain (CTD) of RNA pol II allow the polymerase to pass an early e...
ORGANISM(S): Homo sapiens (Human) 
2022-08-22 | PXD026720 | Pride
Hela Silac Drb Phosphoproteomics Cdk9 
ProteomicsOptimal analytical strategies for sensitive and quantitative phosphoproteomics using TMT-based multiplexing
In large-scale quantitative mass spectrometry (MS)-based phosphoproteomics, isobaric labeling with tandem mass tags (TMTs) coupled with offline high-pH reversed-phase peptide chromatographic fractionation maximizes depth of coverage. To investigate to what extent limited sample amounts affects sensi...
ORGANISM(S): Homo sapiens (Human) 
2022-06-28 | PXD031277 | Pride
Tandem mass tags Phosphoproteomics Optimization High-ph fractionation Isobaric labeling 
ProteomicsIdentification of CDK8 and CDK19 substrates in human cells using cortistatin A and quantitative phosphoproteomics
Cortistatin A (CA) is a highly selective inhibitor of the Mediator kinases CDK8 and CDK19. Using CA, we report here the first large-scale identification of Mediator kinase substrates in human cells (HCT116). Among over 16,000 quantified sites, we identified 78 high-confidence Mediator kinase targets...
ORGANISM(S): Homo sapiens (Human) 
2018-10-24 | PXD003698 | Pride
Orbitrap velos Proteomics Mediator Quantitative Silac Orbitrap ltq Hct116 Colorectal carcinoma Cdk19 Cortistatin a Phosphoproteomics Cdk8 
UnknownQuantitative in vivo phosphoproteomics reveals reversible signaling processes during nitrogen starvation and recovery in the biofuel model organism Chlamydomonas reinhardtii.
Not available
S-EPMC5704542 | biostudies-literature
ProteomicsC2 skeletal myotube phosphoproteome
Skeletal muscle is known to adapt dynamically to changes in workload by regulatory processes of the phosphatidylinositide 3-kinase (PI3K)/Akt pathway. We performed a global quantitative phosphoproteomics analysis of contracting mouse C2 myotubes treated with insulin growth factor 1 (IGF-1) or LY2940...
ORGANISM(S): Mus musculus (Mouse) 
2020-05-25 | PXD009117 | Pride
C2 myotubes Phosphoproteomics Pi3k/akt 
ProteomicsPom1-AS quantitative phosphoproteomics
Complex phosphorylation-dependent signaling networks underlie the coordination of cellular growth and division. In the fission yeast S. pombe, the DYRK family protein kinase regulates cell cycle progression through the mitotic inducer Cdr2, and controls cell polarity through unknown targets. Here, w...
ORGANISM(S): Schizosaccharomyces pombe 
2015-03-09 | PXD001649 | Pride
Pom1 Silac Pombe Phosphoproteomics 
ProteomicsQuantitative phosphoproteomics analysis of ERBB3/ERBB4 signaling
The four members of the epidermal growth factor receptor (EGFR/ERBB) family form homo- and heterodimers which mediate ligand-specific regulation of many key cellular processes in normal and cancer tissues. While signaling through the EGFR has been extensively studied on the molecular level, signal t...
ORGANISM(S): Mus musculus (Mouse) 
2016-01-15 | PXD002665 | Pride
Erbb3 Erbb4 Phosphoproteomics 
ProteomicsLarge-scale phosphoproteomics reveals Shp-2 phosphatase-dependent regulators of Pdgf-receptor signaling
Despite its low cellular abundance, tyrosine phosphorylation (pTyr) regulates numerous cell signaling pathways in health and disease. We applied comprehensive phosphoproteomics to unravel differential regulators of receptor tyrosine kinase (RTK)–initiated signaling networks upon activation by Pdgf-β...
ORGANISM(S): Mus musculus (Mouse) 
2018-03-07 | PXD005803 | Pride
Shp099 Q-exactive Tyrosine phosphorylation Tio2 Mass spectrometry Phosphoproteomics Label-free quantitation Pdgf Shp-2 Orbitrap 
ProteomicsIntegrative proteomics and phosphoproteomics reveals phosphorylation networks involved in maintenance and expression of embryogenic competence in sugarcane callus
Sugarcane (Saccharum spp.) is one of the most important crops for sugar, biofuels and bioenergy production, becoming an important commodity in the world agricultural market for more than 100 countries. In this study, label-free quantitative proteomics and phosphoproteomics analyses were performed to...
ORGANISM(S): Saccharum hybrid cultivar SP80-3280 
2022-05-07 | PXD027388 | Pride
Label-free phosphoproteomics Embryo development Somatic embryogenesis Sugarcane 
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