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GenomicsThreonine-4 of Mammalian RNA Polymerase II CTD is Targeted by Polo-like Kinase-3 and Required for Transcriptional Elongation
Eukaryotic RNA polymerase II (Pol II) has evolved an array of heptad repeats with the consensus sequence Tyr1-Ser2-Pro3-Thr4-Ser5-Pro6-Ser7 at the carboxy-terminal domain (CTD) of the large subunit (Rpb1). Differential phosphorylation of Ser2, Ser5, and Ser7 in the 5M-bM-^@M-^Y and 3M-bM-^@M-^Y regi...
ORGANISM(S): Homo sapiens 
2012-06-04 | E-GEOD-37519 | biostudies-arrayexpress
GenomicsChIP-seq O-GlcNac in mouse ES cells
Analysis of O-GlcNac occupancy on chromatin in mouse ES cells by ChIP-seq
ORGANISM(S): Mus musculus 
2024-08-31 | E-MTAB-14310 | biostudies-arrayexpress
TranscriptomicsCutnRun of O-GlcNac in mouse ES cells in high glucose condition
Study of the chromatin occupancy of O-GlcNac in mouse ES cells cultivated in a high glucose concentration media
ORGANISM(S): Mus musculus 
2024-08-31 | E-MTAB-14308 | biostudies-arrayexpress
TranscriptomicsCutnRun of O-GlcNac in mouse ES cells in low glucose condition at 6 hours, 8 hours, and 1 week
Study of the chromatin occupancy of O-GlcNac in mouse ES cells cultivated in low glucose condition at 6 hours, 8 hours, and 1 week
ORGANISM(S): Mus musculus 
2024-08-31 | E-MTAB-14309 | biostudies-arrayexpress
TranscriptomicsCutnRun directed against O-GlcNac in the human DLD-1 cell line with doxycycline treatment to induce RNA Polymerase II degradation
This experiment aimed at investigating how O-GlcNac occupancy sites are impacted by RNA Polymerase II removal upon doxycycline stimulation. These human colon adenocarcinoma DLD-1 cells express OsTIR and a cassette encoding mini-AID (mAID) and fluorescent protein mClover (mAID+mClover) at the initiat...
ORGANISM(S): Homo sapiens 
2024-08-31 | E-MTAB-14307 | biostudies-arrayexpress
TranscriptomicsTotal RNA-seq upon degradation of OGT by siRNA
Evaluation of change in gene expression upon degradation of OGT by siRNA
ORGANISM(S): Mus musculus 
2024-08-31 | E-MTAB-14313 | biostudies-arrayexpress
GenomicsTyrosine phosphorylation of RNA Polymerase II CTD is associated with antisense promoter transcription and active enhancers in mammalian cells
In mammals, the carboxy-terminal domain (CTD) of RNA polymerase (Pol) II consists of 52 conserved heptapeptide repeats containing the consensus sequence Tyr1-Ser2-Pro3-Thr4-Ser5-Pro6-Ser7. Post-translational modifications of the CTD coordinate the transcription cycle and various steps of mRNA matura...
ORGANISM(S): Homo sapiens 
2014-06-01 | E-GEOD-52914 | biostudies-arrayexpress
TranscriptomicsNuclear mRNA-seq in the differentiation system ESC to NPC upon O-GlcNAc removal
This experiment uses a transgenic cell line expressing bacterial OGA BtGH84 fused to a localization peptide (NLS) and regulated by Tet-On system. OGA is a glycosidase that removes O-GlcNAc modifications. We evaluated the changes in gene expression before and after O-GlcNac removal by OGA.
ORGANISM(S): Mus musculus 
2024-08-31 | E-MTAB-14311 | biostudies-arrayexpress
TranscriptomicsATAC-seq in the differentiation system ESC to NPC upon O-GlcNAc removal
This experiment uses a transgenic cell line expressing bacterial OGA BtGH84 fused to a localization peptide (NLS) and regulated by Tet-On system. OGA is a glycosidase that removes O-GlcNAc modifications. We evaluated the changes in chromatin openness before and after O-GlcNac removal by OGA.
ORGANISM(S): Mus musculus 
2024-08-31 | E-MTAB-14350 | biostudies-arrayexpress
GenomicsCpG islands and GC content dictate nucleosome depletion in a transcription independent manner at mammalian promoters (ChIP-seq)
One clear hallmark of mammalian promoters is the presence of CpG islands (CGIs) at more than two thirds of genes whereas TATA boxes are only present at a minority of promoters. Using genome-wide approaches, we show that GC content and CGIs are major promoter elements in mammalian cells, able to gove...
ORGANISM(S): Homo sapiens 
2012-06-12 | E-GEOD-38561 | biostudies-arrayexpress
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