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ProteomicsA web-based search tool for visualizing instrument performance using the Triple Knockout (TKO) proteome standard
Multiplexing strategies are at the forefront of mass spectrometry-based proteomics, with SPS-MS3 methods becoming increasingly commonplace. A known caveat of isobaric multiplexing is interference resulting from co-isolated and co-fragmented ions that do not originate from the selected precursor of i...
ORGANISM(S): Bos taurus (Bovine) Saccharomyces cerevisiae (Baker's yeast) 
2018-12-04 | PXD011654 | Pride
Tko  interference  tmt  itraq  sps-ms3  tvt  shiny 
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 
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
UnknownWeb-Based Search Tool for Visualizing Instrument Performance Using the Triple Knockout (TKO) Proteome Standard.
Not available
S-EPMC6358484 | biostudies-literature
UnknownA Triple Knockout (TKO) Proteomics Standard for Diagnosing Ion Interference in Isobaric Labeling Experiments.
Not available
S-EPMC5018445 | biostudies-literature
TranscriptomicsTet proteins in DNA demethylation and cell fate restriction
DNA methylation at 5-position of cytosine (5mC) is one of the best studied epigenetic modifications that plays important roles in diverse biological processes. Iterative oxidation of 5mC by the Ten-eleven translocation (Tet) family of proteins generates 5-hydroxymethylcytosine (5hmC), 5-formylcytosi...
ORGANISM(S): Mus musculus 
2014-09-22 | E-GEOD-56986 | biostudies-arrayexpress
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 
ProteomicsA Triple KnockOut Isobaric-labelling Quality Control Platform in an Integrated On-line Database Search
Sample multiplexing using isobaric tagging is a powerful strategy for proteome-wide protein quantification. One major caveat of isobaric tagging is ratio compression that results from the isolation, fragmentation, and quantification of co-eluting, near-isobaric peptides, a phenomenon typically refer...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2020-03-31 | PXD017803 | Pride
Tko standard  ion interference  tmt  itraq  sps-ms3  tvt  shiny application 
ProteomicsImplementation of Non‑Isobaric TMT Analogues for Accurate Precursor‑Level Quantification by plexDIA
Multiplexed Data-Independent Acquisition (plexDIA) aims to bridge the gap between the quantitative depth of DIA and the sample throughput of isobaric tag-based workflows. Here, we implement non‑isobaric sample multiplexing using commercially available, isotopically differentiated tandem mass tag (TM...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2026-09-07 | PXD078770 | Pride
Plexdia Tko standard Non-isobaric multiplexing Quantitative proteomics 
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) 
2019-08-30 | MSV000084263 | MassIVE
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