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ProteomicsA Triple Knockout (TKO) Proteomics Standard for Diagnosing Ion Interference in Isobaric Labeling Experiments
Isobaric labeling is a powerful strategy for quantitative mass spectrometry-based proteomic investigations. A complication of such analyses has been the co-isolation of multiple analytes of similar mass-to-charge resulting in the distortion of relative protein abundance measurements across samples. ...
ORGANISM(S): Saccharomyces Cerevisiae (ncbitaxon:4932) 
2019-08-23 | MSV000084230 | MassIVE
ProteomicsA causal model of ion interference enables assessment and correction of ratio compression in multiplex proteomics
We thoroughly characterize isobaric labeling (TMT)-associated reporter ion interference at the MS2 level using a defined two-proteome experimental system with known ground truth. We discover remarkably poor agreement between the apparent precursor purity in the isolation window and the actual level ...
ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae Saccharomyces cerevisiae (Baker's yeast) 
2023-12-19 | PXD040449 | Pride
Ion interference Tmt Ratio compression Isobaric label 
ProteomicsA Triple Knockout (TKO) Proteomics Standard for Diagnosing Ion Interference in Isobaric Labeling Experiments
Isobaric labeling is a powerful strategy for quantitative mass spectrometry-based proteomic investigations. A complication of such analyses has been the co-isolation of multiple analytes of similar mass-to-charge resulting in the distortion of relative protein abundance measurements across samples. ...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2017-10-26 | PXD008009 | Pride
Ion interference Ms standard Tmt Muiltinotch Lumos Orbitrap fusion 
ProteomicsEvaluation of a Dual Isolation Width Acquisition (DIWA) method for isobaric labelling ratio decompression
Stable isotope labelling of peptides using isobaric reagents such as iTRAQ and TMT enables the multiplexed analysis of proteomes with deep quantitative coverage. Isobaric tagging demonstrates high precision but imperfect accuracy due to ratio underestimation caused by co-fragmentation of ions with m...
ORGANISM(S): Homo sapiens (Human) Escherichia coli 
2019-01-07 | PXD010571 | Pride
Method development Tmt Msms Diwa 
ProteomicsAssessing Interference in Isobaric Tag-based Sample Multiplexing using an 18-plex Interference Standard
Reporter ion interference remains a limitation of isobaric tag-based sample multiplexing. Advances in instrumentation and data acquisition modes, such as the recently developed real-time database search (RTS), can reduce interference. However, interference persists as does the need to benchmark upst...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2022-01-06 | PXD029458 | Pride
Faims Eclipse Ifi Sps-ms3 Rts Tmtpro18 
ProteomicsAn updated perspective on deconvoluting chimeric MS/MS spectra by LC and precursor isolation and their subsequent assignment by the CharmeRT mPSM search strategy
Considering the recent advances in LC and mPSM methodologies, we aimed to provide a systematic comparison and in-depth analysis of the effects that standard and specialized LC setups, as well as different isolation windows, have on the occurrence and assignment of chimeric spectra derived from a com...
ORGANISM(S): Homo sapiens (Human) 
2019-05-20 | PXD012635 | Pride
Liquid chromatography Tandem mass spectrometry Chimeric spectra Isolation interference 
ProteomicsEASI-tag enables accurate multiplexed and interference-free MS2-based proteome quantification
We developed EASI-tag (Easily Abstractable Sulfoxide-based Isobaric tag), a new generation of amine-derivatizing and sulfoxide-containing isobaric labelling reagents, which dissociate at low collision energy and generate peptide-coupled, interference-free reporter ions with high yield. Efficient iso...
ORGANISM(S): Homo sapiens (Human) Saccharomyces cerevisiae (Baker's yeast) 
2018-06-21 | PXD007165 | Pride
Isobaric labeling Proteomics Mass spectrometry 
TranscriptomicsDEPS-1 promotes P granule assembly and RNA interference in C. elegans germ cells
P granules are germ-cell-specific cytoplasmic structures containing RNA and protein and required for proper germ cell development in C. elegans. A new P-granule-associated protein, DEPS-1, whose loss disrupts P granule structure and function was analysed in this study. Genome wide analysis of gene...
ORGANISM(S): Caenorhabditis elegans 
2010-05-26 | E-GEOD-9993 | biostudies-arrayexpress
UnknownExamining Changes in Pain Interference via Pandemic-Induced Isolation Among Patients Receiving Medication for Opioid Use Disorder: A Secondary Data Analysis.
Not available
S-EPMC10441456 | biostudies-literature
TranscriptomicsProfiling of circadian genes expressed in the uterus endometrial stromal cells of pregnant rats as revealed by DNA microarray coupled with RNA interference
The peripheral circadian oscillator plays an essential role in synchronizing local physiology to operate in a circadian manner via regulation of the expression of clock-controlled genes. In the murine uterus, the endometrial stromal cells undergo proliferation and differentiation into decidual cells...
ORGANISM(S): Rattus norvegicus 
2013-07-23 | E-GEOD-49080 | biostudies-arrayexpress
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