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ProteomicsCompetition or indifference: Neutron-Encoding to profile linkage selectivity of deubiquitinating enzymes
This data set contains all raw data files in the mzXML (for LC-MS data) format that belongs to the manuscript "Competition or indifference: Neutron-Encoding to profile linkage selectivity of deubiquitinating enzymes" by Bianca D. M. van Tol, Bjorn R. van Doodewaerd, Guinevere S. M. Lageveen-Kammeije...
ORGANISM(S): Synthetic Ubiquitins 
2022-10-05 | MSV000090455 | MassIVE
TranscriptomicsAnalysis of the role of yeast Slf1p in translation of specific mRNAs during oxidative stress response
The mechanisms by which RNA-binding proteins control the translation of subsets of mRNAs are not yet clear. Slf1p is an atypical La motif containing protein (LARP). LARPs are members of a superfamily of RNA-binding proteins conserved across eukaryotes. We performed transcriptomics and RIP-Seq analys...
ORGANISM(S): Saccharomyces cerevisiae 
2015-05-01 | E-MTAB-2567 | biostudies-arrayexpress
TranscriptomicsAnalysis of the role of yeast Sro9p in controlling the translation of specific mRNAs
The mechanisms by which RNA-binding proteins control the translation of subsets of mRNAs are not yet clear. Sro9p is an atypical La motif containing protein (LARP). LARPs are members of a superfamily of RNA-binding proteins conserved across eukaryotes. We performed transcriptomics and RIP-Seq analys...
ORGANISM(S): Saccharomyces cerevisiae 
2015-05-01 | E-MTAB-2568 | biostudies-arrayexpress
ProteomicsProteomics analysis of the effect of deletion of PUF3 on yeast via LC-MSMS.
The Puf family of RNA-binding proteins regulate the expression of genes by controlling protein synthesis or stimulating RNA decay. Puf3p is one of six Puf-family members in Saccharomyces cerevisiae. Puf3p has been characterised previously as regulating mRNA decay of nuclear mRNAs that encode for mi...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2016-04-13 | PXD001903 | Pride
Lc-msms Yeast Label-free quantification 
ProteomicsIdentification of protein-protein interactions involving the eIF4E binding proteins Caf20p and Eap1p on yeast via affinity purification and LC-MSMS.
There are multiple translational control pathways. These include pathways involving eIF4E binding proteins (4E-BPs), which inhibit translation by binding and sequestering the 5’ cap binding protein eIF4E away from its partner eIF4G. Saccharomyces cerevisiae has two 4E-BPs: Caf20p and Eap1p. Previou...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2016-06-29 | PXD001407 | Pride
Lc-msms Affinity purification Yeast Label-free quantification 
ProteomicsProteomics analysis of the effect of Slf1 deletion on yeast response to oxidative stress via LC-MSMS
The mechanisms by which RNA-binding proteins control the translation of subsets of mRNAs are not yet clear. Slf1p is an atypical La motif containing protein (LARP). LARPs are members of a superfamily of RNA-binding proteins conserved across eukaryotes. Transcriptomics and RIP-Seq analysis suggested ...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2015-03-12 | PXD000887 | Pride
Lc-msms Yeast Label-free quantification Oxidative stress 
ProteomicsProteomics analysis of the effect of deletion and mutation of eIF4E binding proteins Caf20 and Eap1 on yeast via LC-MSMS.
There are multiple translational control pathways. These include pathways involving eIF4E binding proteins (4E-BPs), which inhibit translation by binding and sequestering the 5’ cap binding protein eIF4E away from its partner eIF4G. Saccharomyces cerevisiae has two 4E-BPs: Caf20p and Eap1p; and, mic...
ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast) 
2016-05-04 | PXD001348 | Pride
Lc-msms Yeast Label-free quantification 
UnknownTenosynovial Giant Cell Tumor Observational Platform Project (TOPP) Registry: A 2-Year Analysis of Patient-Reported Outcomes and Treatment Strategies.
Not available
S-EPMC10243766 | biostudies-literature
TranscriptomicsAnalysis of the effect of PUF3 deletion in mRNA translation in yeast
The Puf family of RNA-binding proteins regulates gene expression by controlling protein synthesis or stimulating RNA decay. Puf3p is one of six related proteins in Saccharomyces cerevisiae characterised as targeting and regulating decay of nuclear-encoded mRNAs specifying mitochondrial proteins. M...
ORGANISM(S): Saccharomyces cerevisiae 
2016-03-31 | E-MTAB-3406 | biostudies-arrayexpress
TranscriptomicsEffect of stress on the binding affinity of yeast eIF4F components to their target RNAs
Translation factors eIF4E and eIF4G form eIF4F, which binds to mRNAs to promote ribosome recruitment and translation initiation. We were interested in analysing the effects of stresses on eIF4F interactions with individual mRNAs. We used a RIP-seq approach to assess how mRNA associations with eIF4E,...
ORGANISM(S): Saccharomyces cerevisiae 
2017-10-11 | E-MTAB-5836 | biostudies-arrayexpress
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