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ProteomicsA multiplex fragment ion-based method for accurate proteome quantification
We developed a multiplex pseudo-isobaric dimethyl labeling (m-pIDL) method for proteome quantification to extend the capacity of the fragment ion-based method to 6-plex by one-step dimethyl labeling with several millidalton and dalton mass differences between precursor ions and enlarging the isolati...
ORGANISM(S): Homo Sapiens Escherichia Coli 
2019-01-22 | PXD012457 |
ProteomicsA Collision-induced Dissociation Cleavable Isobaric Tag for Peptide Fragment Ion-based Quantification in Proteomics
Fragment ion-based proteome quantification methods quantify peptides based on unique peptide fragment ions avoiding the issue of ratio distortion that is commonly observed for reporter ion-based quantification approaches. Herein, we present a novel approach that relies on a collision-induced dissoci...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2020-08-17 | PXD018790 | Pride
Isotopic labelling Proteomics Cid cleavable tag Fragment ion-based quantification Isobaric labelling 
MetabolomicsAdvancing Reef Monitoring Techniques through Exometabolomics: Quantification of Labile Dissolved Organic Metabolites on Coral Reefs

Extracellular chemical cues constitute much of the language of life among marine organisms from microbes to mammals. These chemical cues shape foraging and feeding strategies, symbiotic interactions, selection of mates and habitats, and the transfer of energy and nutrient...

2025-07-16 | MTBLS9008 | MetaboLights
MetabolomicsCustomized Consensus Spectral Library Building for Untargeted Quantitative Metabolomics Analysis with Data Independent Acquisition Mass Spectrometry and MetaboDIA Workflow
Data independent acquisition-mass spectrometry (DIA-MS) coupled with liquid chromatography is a promising approach for rapid, automatic sampling of MS/MS data in untargeted metabolomics. However, wide isolation windows in DIA-MS generate MS/MS spectra containing a mixed population of fragment ions t...
2018-03-26 | MTBLS417 | MetaboLights
UnknownA Collision-Induced Dissociation Cleavable Isobaric Tag for Peptide Fragment Ion-Based Quantification in Proteomics.
Not available
S-EPMC7476077 | biostudies-literature
ProteomicsIsobaric matching between runs and novel PSM-level normalization in MaxQuant strongly improve reporter ion-based quantification - mouse tissue dataset
Isobaric labeling has the promise of combining high sample multiplexing with precise quantification. However, normalization issues and the missing value problem of complete n-plexes hamper quantification across more than one n-plex. Here we applied two novel algorithms implemented in MaxQuant that s...
ORGANISM(S): Mus musculus (Mouse) 
2020-06-22 | PXD019880 | Pride
Match between runs Normalization Tandem mass tag Isobaric labeling Multiplexed quantification 
ProteomicsIsobaric matching between runs and novel PSM-level normalization in MaxQuant strongly improve reporter ion-based quantification - Peli1 knock-out mice dataset
Isobaric labeling has the promise of combining high sample multiplexing with precise quantification. However, normalization issues and the missing value problem of complete n-plexes hamper quantification across more than one n-plex. Here we introduce two novel algorithms implemented in MaxQuant that...
ORGANISM(S): Mus musculus (Mouse) 
2020-06-22 | PXD019881 | Pride
Match between runs Normalization Tandem mass tag Isobaric labeling Multiplexed quantification 
ProteomicsSynchro-PASEF slices peptide precursors enabling specific fragment extraction and interference removal in data independent acquisition
Data independent acquisition methods have become increasingly popular in mass spectrometry (MS)-based proteomics because they enable parallel and continuous acquisition of fragment spectra. However, these advantages come with the challenge of correctly reconstructing the precursor-fragment relations...
ORGANISM(S): Bos taurus (Bovine) Candida albicans (Yeast) Homo sapiens (Human) Oryctolagus cuniculus (Rabbit) 
2023-03-10 | PXD037766 | Pride
Pasef Tof Rapid analysis Tims Data-independent acquisition Scan mode 
ProteomicsRatio accuracy evaluation and correction using tandem mass tags
The multiplexing capabilities of isobaric mass tag based protein quantification, such as Tandem Mass Tags (TMT) or Isobaric Tag for Relative and Absolute Quantitation (iTRAQ) have dramatically increased the scope of Mass Spectrometry (MS) based proteomics studies. Not only does the technology allow ...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2018-08-27 | MSV000082855 | MassIVE
ProteomicsLabel-Free Quantification of Yeast Cellular Proteome
Precursor ion intensity quantification and intensity-based absolute quantity estimation (IBAQ) was used to on the mixture of yeast cell lysates in order to estimate the absolute concentrations of the proteins.
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2020-03-06 | PXD012803 | Pride
Lc-ms Intensity-based absolute quantification Saccharomyces cerevisiae Label-free quantification 
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