Results 11 to 20 of about 27,576 (286)
Nature Communications, 2023 Many software suites and spectral libraries have been developed for DIA proteomics data analysis. Here, the authors create benchmark data sets to evaluate four commonly used software tools combined with seven spectral libraries in both global proteomics ...
Ronghui Lou +6 more
semanticscholar +1 more source
bioRxiv, 2023 We developed cProSite, a website that provides online genomics, proteomics, and phosphoproteomics analysis for the data of The National Cancer Institute’s Clinical Proteomic Tumor Analysis Consortium (CPTAC).
Dunrui Wang +15 more
semanticscholar +1 more source
Cells, 2021 The influence of phosphoproteomics sample preparation methods on the biological interpretation of signaling outcome is unclear. Here, we demonstrate a strong bias in phosphorylation signaling targets uncovered by comparing the phosphoproteomes generated ...
Bharath Sampadi +2 more
doaj +1 more source
bioRxiv, 2023 Improving coverage, robustness and sensitivity is crucial for routine phosphoproteomics analysis by single-shot liquid chromatography tandem mass spectrometry (LC-MS/MS) runs from minimal peptide inputs. Here, we systematically optimized key experimental
Patricia Bortel +5 more
semanticscholar +1 more source
Signal Transduction and Targeted Therapy, 2023 Acute myeloid leukaemia (AML) patients harbouring certain chromosome abnormalities have particularly adverse prognosis. For these patients, targeted therapies have not yet made a significant clinical impact.
P. Casado +14 more
semanticscholar +1 more source
DeepFLR facilitates false localization rate control in phosphoproteomics
Nature Communications, 2023 Protein phosphorylation is a critical modification in many cellular processes. Here, the authors present DeepFLR, a deep learning-based framework to accurately predict phosphopeptide tandem mass spectra and effectively control false localization rates in
Yu Zong +6 more
semanticscholar +1 more source
Principles of phosphoproteomics and applications in cancer research
Biochemical Journal, 2023 Phosphorylation constitutes the most common and best-studied regulatory post-translational modification in biological systems and archetypal signalling pathways driven by protein and lipid kinases are disrupted in essentially all cancer types.
L. Higgins, Henry Gerdes, P. Cutillas
semanticscholar +1 more source
Paradigm of biased PAR1 (protease-activated receptor-1) activation and inhibition in endothelial cells dissected by phosphoproteomics [PDF]
, 2017 Thrombin is the key serine protease of the coagulation cascade and mediates cellular responses by activation of PARs (protease-activated receptors). The predominant thrombin receptor is PAR1, and in endothelial cells (ECs), thrombin dynamically regulates
Hoogendijk, Arie J. +7 more
core +16 more sources
Optimized Suspension Trapping Method for Phosphoproteomics Sample Preparation
Analytical Chemistry, 2023 A successful mass spectrometry-based phosphoproteomics analysis relies on effective sample preparation strategies. Suspension trapping (S-Trap) is a novel, rapid, and universal method of sample preparation that is increasingly applied in bottom-up ...
Fujia Wang +4 more
semanticscholar +1 more source