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TranscriptomicsExpression data from Saccharomyces cerevisiae strains deleted for the THSC/TREX-2 subunits Thp1, Sac3 and Sus1
Transcription is a major obstacle for replication fork progression and a cause of genome instability. Such instability increases in mutants with a suboptimal assembly of the nascent messenger ribonucleo-protein particle (mRNP), as THO/TREX and the NPC-associated THSC/TREX-2 complex. We used microarr...
ORGANISM(S): Saccharomyces cerevisiae 
2014-10-08 | E-GEOD-56702 | biostudies-arrayexpress
TranscriptomicsExpression data from Saccharomyces cerevisiae strains deleted for different subunits of the THO/TREX complex
THO/TREX is a conserved nuclear complex that functions in mRNP biogenesis at the interface of transcription-RNA export with a key role in preventing transcription-associated genome instability. We used microarrays to analyze the impact of different THO/TREX mutations on gene expression and found tha...
ORGANISM(S): Saccharomyces cerevisiae 
2011-06-28 | E-GEOD-24802 | biostudies-arrayexpress
ProteomicsTargeted RNase H-mediated Extraction of crosslinked RBPs (TREX) for assessing U1 RNA interactome
We used Targeted RNase H-mediated Extraction of crosslinked RBPs (TREX)to assess the endogenous binding partners of U1 small nuclear RNA (U1 snRNA) in human HCT116 cells. Extracted proteins from U1 digested and control cells (5 replicate per condition) were compared, using label-free (LFQ) Quantitat...
ORGANISM(S): Homo sapiens (Human) 
2023-12-27 | PXD044643 | Pride
Trex  rbp  rna interactome  lc-ms/ms  quantitative proteomics 
TranscriptomicsThe nuclear pore-associated TREX-2 complex employs the Mediator Med31 submodule as a docking site to regulate gene expression
Nuclear pore complexes (NPCs) influence gene expression besides their established function in nuclear transport. The TREX-2 complex localizes to the NPC basket and affects gene-NPC interactions, transcription and mRNA export. How TREX-2 regulates the gene expression machinery is unknown. Here, we sh...
ORGANISM(S): Saccharomyces cerevisiae 
2015-08-27 | E-GEOD-67431 | biostudies-arrayexpress
MetabolomicsAccumulation of the coumarin scopolin under abiotic stress conditions is mediated by the Arabidopsis thaliana THO/TREX complex
Secondary metabolites are involved in the plant stress response. Among these are scopolin and its active form scopoletin, which are coumarin derivatives associated with reactive oxygen species scavenging and pathogen defence. Here we show that in Arabidopsis thaliana, scopolin accumulation can be in...
2018-02-05 | MTBLS389 | MetaboLights
ProteomicsTargeted RNase H-mediated Extraction of crosslinked RBPs (TREX) for assessing region-specific NORAD lncRNA interactome
We used Targeted RNase H-mediated Extraction of crosslinked RBPs (TREX)to assess the endogenous binding partners of the ND4 segment of NORAD long noncoding RNA (lncRNA) in human HCT116 cells. Extracted proteins from RNase H digested and control cells (4 replicate per region per condition) were compa...
ORGANISM(S): Homo sapiens (Human) 
2023-12-27 | PXD045385 | Pride
Norad  nd4  lncrna  trex  rbp  rna interactome  lc-ms/ms  quantitative proteomics 
ProteomicsTargeted RNase H-mediated Extraction of crosslinked RBPs (TREX) for deciphering the region-specific interactome of 45S rRNA
We used Targeted RNase H-mediated Extraction of crosslinked RBPs (TREX)to assess the endogenous region-specific binding partners of 45S rRNA in human HCT116 cells. We performed TREX experiments against the full-length 45S, as well as each individual region (5'ETS. 18S, ITS1, 5.8S, ITS2, 28S, and 3'E...
ORGANISM(S): Homo sapiens (Human) 
2023-12-27 | PXD044659 | Pride
45s rrna  pre-rrna  rrna  5'ets  its1  its2  3'ets  18s  28s  5.8s  trex  rbp  rna interactome  lc-ms/ms  quantitative proteomics 
ProteomicsArabidopsis TREX components THO5A/B
Characterisation of the Arabidopsis transcription-export (TREX) core complex THO by affinity purification combined with mass spectrometry (AP-MS) revealed that both THO5A and THO5B are components of the complex. Functional assays demonstrate a role in nucleocytosolic mRNA transport in plants.
ORGANISM(S): Arabidopsis thaliana (Mouse-ear cress) 
2026-06-16 | PXD049030 | Pride
Ap-ms Arabidopsis Trex Mrna export 
UnknownJustification Of Empiric Methodology to Determine Dexmedetomidine Dose for the TREX Study.
Not available
S-EPMC10107467 | biostudies-literature
ProteomicsTREx-BCBL1-RTA GPRC5A-FLAG Immunoprecipitation LC-MS
The epitranscriptomic modification m6A is a ubiquitous feature of the mammalian transcriptome. It modulates mRNA fate and dynamics to exert regulatory control over numerous cellular processes and disease pathways, including viral infection. Kaposi’s sarcoma-associated herpesvirus (KSHV) reactivation...
ORGANISM(S): Homo sapiens (Human) Human gammaherpesvirus 8 
2023-07-20 | PXD039669 | Pride
Human kshv gprc5a 
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