Sort   by:  
 Page size 
ProteomicsA protocol for global quantification of phosphoproteins combining metabolic labeling and gel-based proteomics
Differential proteomics targeting the abundance level and changes of proteins is commonly used in biology to determine changes induced by different physiological states in living organisms. Here, current methods comprise both label-free and label-based proteomics approaches. More specifically, besid...
ORGANISM(S): Bacillus pumilus 
2017-10-02 | PXD005262 | Pride
Peroxide stress adaptation Gel-based proteomics Phosphorylation 14n/15n metabolic labeling Bacillus pumilus Quantification 
ProteomicsRelative quantification of 15N labeled acinus-2 pinin-1 and 14N labeled Col through Data Dependent Acquisition to obtain peptide information for targeted Parallel Reaction Monitoring experiment
To examine the properties of 14N and 15N labeled peptides using Parallel Reaction Monitoring (PRM) on a high resolution, high accuracy mass spectrometer we first set up this DDA experiment. The purpose of this experiment was to choose peptides that are good candidates for targeted quantification. Th...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2022-06-09 | PXD030098 | Pride
Arabidopsis Quantification Data dependent acquisition 15n metabolic labeling Relative quantification Silac Protein prospector 
ProteomicsQuantitative proteomic comparison between wild type Col and sec-5 mutant using 15N metabolic labeling
SECRET AGENT (SEC) is an O-GlcNAc transferase involved in O-GlcNAcylation of many proteins. However, sec-5 null allele mutant phenotype is very subtle. To examine if there are proteins that show altered expression in the sec-5 mutant compared to wild-type Col, we designed MS experiments to identify ...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2022-02-04 | PXD030575 | Pride
Arabidopsis Quantification 15n metabolic labeling Protein prospector Secret agent (sec) 
ProteomicsParallel Reaction Monitoring of 42 peptide pairs with 15N metabolic labeling
To examine the properties of 14N and 15N labeled peptides from 15 metabolic labeling samples, we set up targeted quantification using Parallel Reaction Monitoring (PRM) on a high resolution, high accuracy mass spectrometer. We first examined the co-elution of light and heavy peptide forms. Furthermo...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2022-06-09 | PXD030112 | Pride
Arabidopsis Quantification 15n metabolic labeling Protein prospector Targeted quantification Parallel reaction monitoring (prm) 
ProteomicsQuantitative proteomic comparison between wild type Col and acinus-2 pinin-1 mutant using 15N metabolic labeling
ACINUS and PININ genes regulate transcription and alternative splicing (Bi et al., 2021) and we hypothesize that some proteins should have altered expression in the double mutant. Therefore, MS experiments were designed to identify these altered proteins on a global scale using 15N metabolic labeli...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2022-02-04 | PXD030081 | Pride
Arabidopsis Acinus Quantification 15n metabolic labeling Protein prospector Pinin 
ProteomicsA metabolic labeling strategy for relative protein quantification in Clostridioides difficile
Clostridioides difficile (formerly Clostridium difficile) is a Gram-positive, spore-forming pathogen which cases drug-induced Clostridioides difficile-associated diseases in hospitals worldwide. A detailed analysis of the proteome may provide new targets for drug development or therapy strategies to...
ORGANISM(S): Peptoclostridium difficile (strain 630) (Clostridium difficile) 
2018-10-25 | PXD010279 | Pride
Proteomics Relative protein quantification Mass spectrometry Metabolic labeling Clostridioides difficile 
ProteomicsUsing targeted quantification (PRM) to quantify proteins between wild type Col and acinus-2 pinin-1 mutant with 15N metabolic labeling
ACINUS and PININ genes regulate transcription and alternative splicing (Bi et al., 2021) and we hypothesize that some proteins should have altered expression in the double mutant. Therefore, MS experiments were designed to identify these altered proteins on a global scale using 15N metabolic labeli...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2022-04-19 | PXD030096 | Pride
Arabidopsis Acinus Quantification 15n metabolic labeling Protein prospector Targeted quantification Pinin Parallel reaction monitoring (prm) 
ProteomicsProteomic comparison of Chlamydomonas wildtype and calredoxin knock-down mutants via 14N/15N metabolic labeling
Calcium (Ca2+) and redox signaling play important roles in acclimation processes from archaea to eukaryotic organisms. Herein we characterized a unique protein from Chlamydomonas reinhardtii that has the competence to integrate Ca2+- and redox-related signaling. This protein, designated as calredoxi...
ORGANISM(S): Chlamydomonas reinhardtii 
2016-10-12 | PXD003759 | Pride
Chlamydomonas Calredoxin 
ProteomicsMethylated-antibody affinity purification to improve proteomic identification of plant RNA polymerase Pol V complex and the interacting proteins
Affinity purification followed by enzymatic digestion and mass spectrometry has been widely utilized for the sensitive detection of interacting proteins and protein complexes in various organisms. In plants, the method is technically challenging due to the low abundance proteins, non-specific bindin...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2017-02-28 | PXD005422 | Pride
On-bead digestion Pol v complex Chemical cross-link Reductive methylation Ap-ms 
ProteomicsApplication of TurboID-mediated proximity labeling and phosphoproteomics for mapping a GSK3 kinase signaling network in Arabidopsis
Transient protein-protein interactions (PPIs), such as those between posttranslational modifying enzymes and their substrates, play key roles in cellular regulation, but are difficult to identify. Here we demonstrate the application of enzyme-catalyzed proximity labeling (PL), using the engineered p...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2023-05-10 | PXD017085 | Pride
Proximity labeling Turboid Mass spectrometry Protein interactome Protein-protein interaction Gsk3 kinase Phosphoproteomics Plant Biotinylation 
Sort   by:  
 Page size