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TranscriptomicsTranslational profiling of HEK293 cells exposed to cold shock (32 degrees C) and untreated (37 degrees C)
This experiment investigates the effect of mild cold-shock (32 degrees C, 24 hours) on the translatome of human HEK293 cells. After cold-shock, cells were treated with cycloheximide to block elongation, then sucrose density gradients were used to separate post-nuclear extracts into polysome and subp...
ORGANISM(S): Homo sapiens 
2017-02-23 | E-MTAB-5437 | biostudies-arrayexpress
TranscriptomicsEvaluating bias-reducing protocols for RNA sequencing library preparation
The ligation step in RNA sequencing library generation is a known source of bias. We present the first comparison of the standard duplex adaptor protocol supplied by Life Technologies for use on the Ion Torrent PGM with an alternate single adaptor approach involving CircLigase (CircLig). We also...
ORGANISM(S): synthetic construct 
2014-06-24 | E-MTAB-2566 | biostudies-arrayexpress
ProteomicsFunctional characterisation of tumour suppressor PDCD4 reveals a previously undisclosed role in the control of cell adhesion
PDCD4 is a multifunctional RNA binding protein which has tumour suppressor function. To more fully understand how dysregulation of this protein contributes to carcinogenesis we have carried out a comprehensive analysis of the role of PDCD4 in RNA metabolism in untransformed epithelial cells. We show...
ORGANISM(S): Homo sapiens (Human) 
2024-07-31 | PXD054188 | Pride
Rna-binding Pdcd4 Nucleus Cell adhesion Translation control 
GenomicsFunctional characterisation of tumour suppressor PDCD4 reveals a previously undisclosed role in the control of cell adhesion
Functional characterisation of tumour suppressor PDCD4 reveals a previously undisclosed role in the control of cell adhesion
PRJNA1136977 | ENA
GenomicsFunctional characterisation of tumour suppressor PDCD4 reveals a previously undisclosed role in the control of cell adhesion
Functional characterisation of tumour suppressor PDCD4 reveals a previously undisclosed role in the control of cell adhesion
PRJNA1136976 | ENA
ProteomicsUnresolved stalled ribosome complexes restrict cycle progression after genotoxic stress
Translation of damaged mRNA can lead to ribosome stalling, thereby producing incomplete proteins toxic to the cell. The mechanism of ribosome-associated quality control (RQC) disassembles stalled ribosomes through the actions of the ASC-1 complex (ASCC). Here, we show that some reagents that chemica...
ORGANISM(S): Homo sapiens (Human) 
2022-02-07 | PXD023976 | Pride
Rna damage Rna interactome capture Ascc3 Asc-1 complex Ribosome-associated quality control 
ProteomicsUnresolved stalled ribosome complexes restrict cycle progression after genotoxic stress
Translation of damaged mRNA can lead to ribosome stalling, thereby producing incomplete proteins toxic to the cell. The mechanism of ribosome-associated quality control (RQC) disassembles stalled ribosomes through the actions of the ASC-1 complex (ASCC). Here, we show that some reagents that chemica...
ORGANISM(S): Homo sapiens (Human) 
2022-02-07 | PXD023978 | Pride
Rna damage Rna interactome capture Ascc3 Asc-1 complex Ribosome-associated quality control 
ProteomicsUnresolved stalled ribosome complexes restrict cycle progression after genotoxic stress
Translation of damaged mRNA can lead to ribosome stalling, thereby producing incomplete proteins toxic to the cell. The mechanism of ribosome-associated quality control (RQC) disassembles stalled ribosomes through the actions of the ASC-1 complex (ASCC). Here, we show that some reagents that chemica...
ORGANISM(S): Homo sapiens (Human) 
2022-02-07 | PXD023861 | Pride
Rna damage Rna interactome capture Ascc3 Asc-1 complex Ribosome-associated quality control 
ProteomicsUnresolved stalled ribosome complexes restrict cycle progression after genotoxic stress
Translation of damaged mRNA can lead to ribosome stalling, thereby producing incomplete proteins toxic to the cell. The mechanism of ribosome-associated quality control (RQC) disassembles stalled ribosomes through the actions of the ASC-1 complex (ASCC). Here, we show that some reagents that chemica...
ORGANISM(S): Homo sapiens (Human) 
2022-02-07 | PXD023878 | Pride
Rna damage Rna interactome capture Ascc3 Asc-1 complex Ribosome-associated quality control 
ProteomicsEukaryotic Initiation factor 4B is a multi-functional RNA binding protein that regulates histone mRNAs
In diffuse large B-cell lymphoma (DLBCL) poor outcome is associated with EIF4B-dependent stimulation of the DEAD box helicase eIF4A that unwinds RNA structures in 5’ untranslated regions (UTRs) in mRNAs that encode proteins with a role in cell proliferation. We carried out iCLIP to examine differenc...
ORGANISM(S): Homo sapiens (Human) 
2024-09-04 | PXD042538 | Pride
Eukaryotic initiation factor 4b (eif4b)  mrna translational control  histone mrnas  rna turnover 
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