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ProteomicsAbsolute quantitation of proteins by two-point quantitation using dimethylated proteotypic peptides
Absolute targeted proteomics typically employs known amounts of synthetic stable isotopically labeled peptides which are mixed with the analyte and analysed by LC-MS. In order to obtain accurate data, we evaluated the use of two different stable isotopes of the same peptide as spike-in for absolute ...
ORGANISM(S): Homo sapiens (Human) 
2018-11-27 | PXD007894 | Pride
Absolute quantitation Dimethylation  mass spectrometry Parallel reaction monitoring Targeted proteomics 
UnknownQuantification of protein isoforms in mesenchymal stem cells by reductive dimethylation of lysines in intact proteins.
Not available
S-EPMC3440571 | biostudies-literature
ProteomicsGlobal quantification of intact proteins via chemical isotope labeling and mass spectrometry
Although thousands of intact proteins can be feasibly identified in recent years, global quantification of intact proteins is still challenging. Herein, we develop a high-throughput strategy for global intact protein quantification based on chemical isotope labeling. The isotope incorporation effici...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2019-04-30 | PXD012526 | Pride
Intact protein quantification Ptop Chemical isotope labeling Highest isotopic peak Mass spectrometry 
ProteomicsAc-IP tag enables multiplexed proteome quantification in data-independent acquisition mode
We propose the isotopically labeled Ac-IP (acetyl-isoleucine-proline) tag for multiplexed quantification of peptides at the MS1 level in the data-independent acquisition (DIA) mode. Differentially labeled peptides have distinct precursor ions carrying the quantitative information but identical MS2 s...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2021-06-07 | PXD022606 | Pride
Quantitative proteomics Isotope labeling Data-independent acquisition 
ProteomicsPhosphoproteome of the cyanobacterium Synechocystis sp. PCC 6803 and its dynamics during nitrogen starvation
Cyanobacteria have shaped the earth’s biosphere as the first oxygenic photoautotrophs and still play an important role in many ecosystems. The ability to adapt to changing environmental conditions is an essential characteristic in order to ensure survival. To this end, numerous studies have shown th...
ORGANISM(S): Synechocystis sp. (strain PCC 6803 / Kazusa) 
2016-05-09 | PXD001831 | Pride
Nitrogen starvation Ltq-orbitrap Cyanobacteria Synechocystis sp. pcc 6803 Peptide dimethylation labeling Phosphoproteome 
ProteomicsChaFRADIC: A novel SCX-based approach for N-terminal Enrichment
Step 1: Cell lysis of yeast sphaeroblast (Saccharomyces cerevisiae) and carbamidomethylation. Step 2: Isotopic labeling with dimethylation (light + medium). Step 3: Proteolytic digestion with trypsin (ArgC specificity because of blocked lysines by dimethylation). Step 4: Enrichment via ChaFRADIC...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2013-08-09 | PXD000292 | Pride
Chafradic Yeast Protease Peptidase Icp55 Cofradic N-terminal Degradomics 
ProteomicsIn-depth quantitative proteomics of signal pathways in BV2 microglial cell activation
Microglia become activated by disturbances in the homeostasis of their local microenvironment. While there are varying degrees of microglia activation, a pro-inflammatory reactive state induced by exposure to stimuli like LPS and IFN-γ. In this study, we identified a total of 5497 proteins in whole ...
ORGANISM(S): Mus musculus (Mouse) 
2017-08-09 | PXD006558 | Pride
Dimethylation labeled quantification Quantitative analysis Bv2 activation 
ProteomicsHERV protease specificity - Identification of Protease Specificity by Combining Proteome-Derived Peptide Libraries and Quantitative Proteomics
Proteome-derived peptide libraries are a powerful tool for the investigation of protease specificity, conventionally involving the biotinylation of cleavage products to enable for their enrichment. Here we present a modified strategy for protease specificity profiling using proteome-derived peptide ...
ORGANISM(S): Escherichia coli 
2016-05-02 | PXD003833 | Pride
Protease 
ProteomicsTag-Free Identification of Protease Specificity Using Proteome-Derived Peptide Libraries
Proteome-derived peptide libraries are a powerful tool for the investigation of protease specificity, conventionally involving the biotinylation of cleavage products to enable for their enrichment. Here we present a modified strategy for protease specificity profiling using proteome-derived peptide ...
ORGANISM(S): Escherichia coli 
2016-05-02 | PXD002785 | Pride
Proteolysis 
ProteomicsA Versatile Isobaric Tag Enables Proteome Quantification in Data Dependent and Data Independent Acquisition Mode
Quantifying proteins based on peptide-coupled reporter-ions is a leading multiplexed quantitative strategy in proteomics that significantly alleviates the problem of ratio distortion caused by peptide co-fragmentation, as commonly observed in other reporter-ion based approaches, such as TMT and iTRA...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2021-09-09 | PXD021187 | Pride
Quantitative proteomics Data dependent acquisition Isobaric labeling Data-independent acquisition 
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