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TranscriptomicsGlobal analysis of mRNA isoform half-lives: identification of stabilizing and destabilizing elements in yeast
We measured half-lives of 21,248 mRNA 3’ isoforms in yeast by rapidly depleting RNA polymerase II from the nucleus and performing direct RNA sequencing throughout the decay process. Interestingly, the half-lives of mRNA isoforms from the same gene, including nearly identical isoforms, often vary wid...
ORGANISM(S): Saccharomyces cerevisiae 
2014-04-02 | E-GEOD-52286 | biostudies-arrayexpress
ProteomicsProteome wide measurements of protein half-lives in Mycoplasma pneumoniae
We obtained proteome wide measurements of protein half-lives in M. pneumoniae by performing pulse-chase experiments following SILAC methods. We estimated degradation rates of individual proteins by measuring the increase in light protein compared to heavy protein labeling along the growth curve.
ORGANISM(S): Mycoplasma pneumoniae (strain ATCC 29342 / M129) 
2020-11-24 | PXD016386 | Pride
Degradation rates Protein half-life Silac 
TranscriptomicsSLAM-seq analysis of mRNA half-lives in human CD8⁺ T cells during activation
SLAM-seq (thiol(SH)-linked alkylation for the metabolic sequencing of RNA) was applied to human primary CD8⁺ T cells subjected to in vitro activation with αCD3/αCD28 beads. To quantify mRNA half-lives and their dynamic changes during CD8⁺ T cell activation, we implemented a pulse-chase design with 2...
ORGANISM(S): Homo sapiens 
2025-10-15 | E-MTAB-15648 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of fission yeast mRNAs at different times after blocking transcription to estimate mRNA half-lives
We estimated global mRNA half-lives by blocking transcription and measuring mRNA levels at different times after transcriptional shut-off.
ORGANISM(S): Schizosaccharomyces pombe 
2008-02-05 | E-TABM-218 | biostudies-arrayexpress
TranscriptomicsMOV10 Is a 5' to 3' RNA Helicase Contributing to UPF1 mRNA Target Degradation by Translocation along 3'UTRs (expression)
RNA helicases are important regulators of gene expression that act by remodeling RNA secondary structures and as RNA-protein interactions. Here, we demonstrate that MOV10 has an ATP-dependent 5' to 3' in vitro RNA unwinding activity and determine the RNA-binding sites of MOV10 and its helicase mutan...
ORGANISM(S): Homo sapiens 
2014-04-11 | E-GEOD-56748 | biostudies-arrayexpress
OtherGlobal analysis of mRNA isoform half-lives: identification of stabilizing and destabilizing elements in yeast
We measured half-lives of 21,248 mRNA 3’ isoforms in yeast by rapidly depleting RNA polymerase II from the nucleus and performing direct RNA sequencing throughout the decay process. Interestingly, the half-lives of mRNA isoforms from the same gene, including nearly identical isoforms, often vary wid...
ORGANISM(S): Saccharomyces cerevisiae 
2014-04-02 | GSE52286 | GEO
ProteomicsProtein turnover analysis in Salmonella Typhimurium during infection by dynamic SILAC, Topograph and quantitative proteomics
Protein turnover affects protein abundance and phenotypes. Comprehensive investigation of protein turnover dynamics has the potential to provide substantial information about gene expression. Here we report a large-scale protein turnover study in Salmonella Typhimurium during infection by quantitati...
ORGANISM(S): Salmonella enterica subsp. enterica serovar Typhimurium 
2022-05-17 | PXD033623 | Pride
Proteomics Salmonella typhimurium Dynamic silac Protein turnover 
TranscriptomicsMeasurement of mRNA decay in exponentially growing cultures of the extremely halophilic euryarchaeon Halobacterium salinarum NRC-1 after blocking transcription with actinomycin D
mRNA half-lives in exponentially growing cultures of the extremely halophilic euryarchaeon Halobacterium salinarum NRC-1
ORGANISM(S): Halobacterium salinarum 
2007-07-31 | E-MEXP-1088 | biostudies-arrayexpress
Transcriptomicsanalysis of the C. albicans mRNA half-lives
This work aimed at analysing mRNA half lives in drug resistant and in drug sensitive strains of C. albicans (Gu4 and Gu5 azole susceptible and resistant clinical isolates (franz et al., 1999)), using the transcriptional inhibitor thiolutine.
ORGANISM(S): Candida albicans 
2011-10-01 | E-TABM-1179 | biostudies-arrayexpress
ProteomicsSystematic analysis of protein turnover in primary cells - Part IV
To better understand proteostasis in health and disease, determination of protein half-lives is essential. We improved the precision and accuracy of peptide-ion intensity based quantification in order to enable accurate determination of protein turnover in non-dividing cells using dynamic-SILAC. Thi...
ORGANISM(S): Homo sapiens (Human) 
2018-06-08 | PXD008512 | Pride
Hepatocytes Isobarquant Silac Protein half lives 
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