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ProteomicsProtein turnover measurement using selected reaction monitoring-mass spectrometry (SRM-MS) C4PR_LIV
Protein turnover represents an important mechanism in the functioning of cells, with deregulated synthesis and degradation of proteins implicated in many diseased states. Therefore, proteomics strategies to measure, with high confidence, turnover rates are of vital importance to understanding many ...
ORGANISM(S): Mus musculus (Mouse) 
2016-08-10 | PXD004413 | Pride
Srm Proteomics Ms1 Mass spectrometry Protein turnover Quantification 
ProteomicsA Selected Reaction Monitoring Approach for Validating Candidate Biomarkers
We here describe a Selected Reaction Monitoring (SRM)-based approach for the discovery and validation of peptide biomarkers for cancer. The first stage of this approach is the direct identification of candidate peptides through comparison of proteolytic peptides derived from the plasma of cancer p...
ORGANISM(S): Homo sapiens (Human) 
2017-12-11 | PXD008094 | Pride
Diagnostics Clinical proteomics Targeted detecton Quantitative proteomics 
MetabolomicsLipidCreator workbench to probe the lipidomic landscape - Targeted lipidomics analysis of Human Plasma samples and comparison with NIST SRM 1950 standard

Here we present LipidCreator, a software that fully supports targeted lipidomics assay development. LipidCreator offers a comprehensive framework to compute MS/MS fragment masses for over 60 lipid classes. LipidCreator provides all functionalities needed to define fragments, manage stable isotope...

2020-04-15 | MTBLS1375 | MetaboLights
ProteomicsMultiplex selected reaction monitoring assay for quantification of 15 human tissue kallikreins in biological samples
Human tissue kallikreins (KLKs) are a group of 15 secreted serine proteases encoded by the largest contiguous cluster of protease genes in the human genome. KLKs are involved in coordination of numerous physiological functions including regulation of blood pressure, neuronal plasticity, skin desquam...
ORGANISM(S): Homo sapiens (Human) 
2016-07-08 | PXD003324 | Pride
Cervicovaginal fluid Sweat Klk4 secretion Mass spectrometry Seminal plasma Selected reaction monitoring Kallikreins 
ProteomicsDirect and Absolute Quantification of over 1800 Yeast Proteins via Selected Reaction Monitoring HUB_MAN C4PR_LIV
Defining intracellular protein concentration is critical in molecular systems biology. Although strategies for determining relative protein changes are available, defining robust absolute values in copies per cell has proven significantly more challenging. Here we present a reference dataset quantif...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2015-12-11 | PXD002694 | Pride
Absolute quantification  selected reaction monitoring  srm  stable-isotope labelling  yeast  tandem quadrupole  qconcat 
ProteomicsAbsolute protein quantification of Mycoplasma pneumoniae proteome by combining selected reaction monitoring of a reduced set of labeled peptides and label-free shotgun mass spectrometry.
We quantified the protein abundances of Mycoplasma pneumoniae (Mpn), a genome-reduced organism, by combining selected reaction monitoring of a reduced set of labeled peptides and label-free shotgun mass spectrometry. A set of 77 labeled peptides were synthesized and used as internal standard peptide...
ORGANISM(S): Mycoplasma pneumoniae (strain ATCC 29342 / M129) 
2023-08-31 | PXD035159 | Pride
Mycoplasma pneumoniae Absolute quantification Label-free Selected reaction monitoring 
ProteomicsTargeted Quantification of Proteoforms in Human Samples by Proteoform Reaction Monitoring
Here, we describe an approach based on the principle of PRM for the measurement of intact proteoforms by targeted top-down proteomics termed Proteoform Reaction Monitoring (PfRM). We explore the ability of our method to circumvent traditional limitations of top-down proteomics such as sensitivity an...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2023-04-21 | MSV000091774 | MassIVE
OtherDiscovery of colorectal cancer biomarker candidates by membrane proteomic analysisand subsequent verification using selected reaction monitoring and tissue microarrayanalysis
Data from ProteomeXchange, PXD ID: PXD000851. File: iTRAQ3.msf.mgf. Published as part of Mol Cell Proteomics. 2014 Mar 31 . From the Abstract: {{i}} We here performed a quantitative proteomic analysis of membrane fractions from colorectal cancer tissue to discover biomarker candidates, and then ext...
ORGANISM(S): Homo_sapiens_viruses, Human 
GPM11210027051 | GPMDB
Resource Reanalysis 
TranscriptomicsIdentification of miRNA target genes in C. elegans by RIP-chip-SRM
RIP-chip-SRM : a New Combinatorial Large Scale Approach Identifies a Set of Translationally Regulated bantam/miR 58 Targets in C. elegans RNA binding protein immunopurification + microarray + targeted protein quantification via Selected Reaction Monitoring This SuperSeries is composed of the follow...
ORGANISM(S): Caenorhabditis elegans 
2012-03-01 | E-GEOD-32944 | biostudies-arrayexpress
ProteomicsA novel tool, Multiple Marker Abundance Profiling, uses Selected Reaction Monitoring and data-dependent acquisition for rapid estimation of organelle abundance in subcellular samples.
Methods were investigated that would deliver rapid and semi-quantitative analysis of the subcellular composition of Arabidopsis samples, as the standard technique for this i.e. immunoblotting is difficult to quantify and relies on a very few protein targets, whose responses to developmental or envir...
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2022-03-02 | PXD004576 | Pride
Srm Subcellular proteomics Organelle Arabidopsis Quantitation Shotgun 
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