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TranscriptomicsRibosome hibernation factor promotes Staphyloccocal survival and differentially represses translation
We sequenced a total of 16 cDNA libararies derived from fragmented total mRNA and ribosome protected mRNAs from S. aureus hpf mutant (NE838) and its parental strain JE2 grown in tryptic soy broth (TSB) or minimal medium (MM). The data represented 2 independent biological replicates. Examination of t...
ORGANISM(S): Staphylococcus aureus 
2016-03-29 | E-GEOD-74197 | biostudies-arrayexpress
TranscriptomicsRibosome Profiling of Mouse Embryonic Stem Cells Reveals the Complexity of Mammalian Proteomes
The ability to sequence genomes has far outstripped approaches for deciphering the information they encode. Here we present a suite of techniques, based on ribosome profiling (the deep-sequencing of ribosome-protected mRNA fragments), to provide genome-wide maps of protein synthesis as well as a p...
ORGANISM(S): Mus musculus 
2011-11-03 | E-GEOD-30839 | biostudies-arrayexpress
TranscriptomicsSelective ribosome profiling reveals the co-translational chaperone action of trigger factor in vivo
As nascent polypeptides exit ribosomes, they are engaged by a series of processing, targeting and folding factors. Here we present a selective ribosome profiling strategy that enables global monitoring of when these factors engage polypeptides in the complex cellular environment. Studies of the Esch...
ORGANISM(S): Escherichia coli 
2011-12-09 | E-GEOD-33671 | biostudies-arrayexpress
TranscriptomicsRibosome profiling of chondrocytic cell line SW1353 following exposure to IL-1B
Osteoarthritis is a chronic disease characterised by the loss of articular cartilage in synovial joints through a process of extracellular matrix destruction that is strongly associated with inflammatory stimuli. Chondrocytes undergo changes to their protein translation capacity during osteoarthriti...
ORGANISM(S): Homo sapiens 
2019-07-12 | E-MTAB-7466 | biostudies-arrayexpress
ProteomicsEDF1 coordinates cellular responses to ribosome collisions
Raw mass spectrometry data associated with the following paper: EDF1 coordinates cellular responses to ribosome collisions. Related to Figure 2H and Figure 2-figure supplement 2F.
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2020-05-15 | MSV000085425 | MassIVE
TranscriptomicsGene expression arrays of cardiomyocyte ribosome-associated RNAs during zebrafish heart regeneration
A transgenic line cmlc2:TRAP was made to express EGFP-fused ribosomal protein L10a (EGFP-L10a) in zebrafish cardiomyocytes. Then ribosome-associated RNAs were immuoprecipitated from uninjured and injured adult cmlc2:TRAP fish to determine the differential expression changes during zebrafish heart re...
ORGANISM(S): Danio rerio 
2013-08-01 | E-GEOD-48914 | biostudies-arrayexpress
ProteomicsEDF1 coordinates cellular responses to ribosome collisions
Raw mass spectrometry data associated with the following paper: EDF1 coordinates cellular responses to ribosome collisions. Related to Figure 5A and Figure 5-source data 1. Files detail: See attached Search Engine file named "Sample info and Maxquant summary"
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2020-05-15 | MSV000085424 | MassIVE
ProteomicsEDF1 coordinates cellular responses to ribosome collisions
Raw mass spectrometry data associated with the following paper: EDF1 coordinates cellular responses to ribosome collisions. Related to Figure 2-figure supplement 2A and Figure 2-source data 2. Files detail: See attached Search Engine File named "Sample info and Maxquant summary"
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2020-05-15 | MSV000085422 | MassIVE
ProteomicsEDF1 coordinates cellular responses to ribosome collisions
Raw mass spectrometry data associated with the following paper: EDF1 coordinates cellular responses to ribosome collisions. Related to Figure 5B, Figure 5-figure supplement 1B-1C and Figure 5-source data 2. Files detail: See attached Search Engine file named "Sample info and Maxquant summary"
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2020-05-15 | MSV000085421 | MassIVE
ProteomicsEDF1 coordinates cellular responses to ribosome collisions
Raw mass spectrometry data associated with the following paper: EDF1 coordinates cellular responses to ribosome collisions. Related to Figure 2, Figure 2-figure supplement 1 and Figure 2-source data 1. Files detail: Monosome (6 BPRP fractions - labeled AO3104-3109); Polysome (6 BPRP fractions - labe...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2020-05-15 | MSV000085419 | MassIVE
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