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MetabolomicsMulti-omics and biophysical phosphoproteomics uncover functional phosphorylation networks of BRAFV600E-driven signaling

Dysregulated kinase activity drives oncogenic signalling, perturbs cellular homeostasis, and promotes tumour progression. Despite major success in targeting kinases therapeutically, the downstream consequences of kinase inhibition and the mechanisms underlying drug resistance remain incompletely ...

2025-12-09 | MTBLS7390 | MetaboLights
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 
ProteomicsMycobacterium smegtatis phosphoproteomics LC-MS/MS
Protein phosphatase PstP is conserved throughout the Actinobacteria in a genetic locus related to cell wall synthesis and cell division. In many Actinobacteria it is the sole annotated serine threonine protein phosphatase to counter the activity of multiple serine threonine protein kinases. We used ...
ORGANISM(S): Mycolicibacterium smegmatis MKD8 
2019-11-12 | PXD011805 | Pride
Bacterial protein phosphatase Bacterial signal transduction Cell division Actinobacteria Phosphoproteomics Mycobacteria Mycobacterium smegmatis 
TranscriptomicsAn integrated global analysis of compartmentalized HRAS signaling
Modern omics technologies allow us obtaining global information on different types of biological networks. However, integrating these different types of analyzes into a coherent framework for a comprehensive biological interpretation remains challenging. Here, we present a conceptual framework that ...
ORGANISM(S): Homo sapiens 
2019-03-12 | E-MTAB-7672 | biostudies-arrayexpress
UnknownA data-independent acquisition-based global phosphoproteomics system enables deep profiling.
Not available
S-EPMC8099862 | biostudies-literature
UnknownGlobal Phosphoproteomics Unveils Kinase-Regulated Networks in Systemic Lupus Erythematosus.
Not available
S-EPMC9712766 | biostudies-literature
ProteomicsGlobal Phosphoproteomics of DYRK1A Inhibition in Glioblastoma Cells
Here we performed a detailed investigation to delineate the role of DYRK1A in glioblastoma, using both pharmacological and genetic tools combined with global phosphoproteomics. Our data show that DYRK1A inhibitors affect a much broader proportion of the phosphoproteome than DYRK1A knockdown. By over...
ORGANISM(S): Homo sapiens (Human) 
2021-04-22 | PXD020441 | Pride
Glioblastoma Proteomics U251 Dyrk1a Phosphoproteome Post-translational modification Mass spectrometry Signal transduction Phosphorylation Cancer Phosphoproteomics 
ProteomicsGlobal ion suppression limits the potential of mass spectrometry based phosphoproteomics
Mass spectrometry-based proteomics has become the method of choice to pinpoint and monitor thousands of post-translational modifications, predominately phosphorylation sites, in cellular signaling studies. Critical for achieving this analytical depth is the enrichment for phosphorylated peptides pri...
ORGANISM(S): Mus musculus (Mouse) 
2021-11-02 | PXD007528 | Pride
Macrophages Tmt Phosphoproteomics Infection Ion supression Lc-ms/ms 
ProteomicsGlobal and phosphoproteomics in control and TP53RK-deficient HT29 cells
We compared the global proteome and phosphoproteome between control and TP53RK-deficient HT29 cells using tandem mass tag (TMT) labeling for quantitative analysis.
ORGANISM(S): Homo sapiens (Human) 
2025-10-27 | PXD061604 | Pride
Ht29 Tmt Tp53rk Cell line Lc-ms/ms 
UnknownA global phosphoproteomics analysis of adult Fasciola gigantica by LC-MS/MS.
Not available
S-EPMC8727970 | biostudies-literature
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