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MetabolomicsTranscriptomic dynamics control rapid transition of core crop functions in 'lactating' pigeon

Pigeons (Columba livia) are widely kept as domesticated pets worldwide, and may have adapted to captivity through the evolutionarily specialized ability to produce ‘milk’ in the crops of both male and female parents via rapid proliferation and shedding of lipid- and protein-enriched epithelial ce...

2023-02-13 | MTBLS5195 | MetaboLights
TranscriptomicsNucleotide composition-linked divergence of vertebrate core promoter architecture
Transcription initiation involves the recruitment of basal transcription factors to the core promoter. A variety of core promoter elements exists, however for most of these motifs the distribution across species is unknown. Here we report on the comparison of human and amphibian promoter sequences. ...
ORGANISM(S): Xenopus (Silurana) tropicalis 
2010-12-30 | E-GEOD-21482 | biostudies-arrayexpress
TranscriptomicsEnhancer-core promoter specificity separates developmental and housekeeping regulation
Gene transcription in animals involves the assembly of the RNA polymerase II complex at core promoters and its cell type-specific activation by genomic enhancers that can be located more distally. However, how ubiquitous expression of housekeeping genes is achieved has remained less clear. In partic...
ORGANISM(S): Drosophila melanogaster 
2014-12-10 | E-GEOD-57876 | biostudies-arrayexpress
GenomicsControl of Embryonic Stem Cell Lineage Commitment by Core Promoter Factor, TAF3 (ChIP-Seq data)
We report that TAF3, a TBP-associated core promoter factor, is highly enriched in ES cells. In addition to its role in the core promoter recognition complex TFIID, genome-wide binding studies reveal that TAF3 localizes to chromosomal regions bound by CTCF and cohesin. Enrichment for TAF3/CTCF/cohesi...
ORGANISM(S): Mus musculus 
2011-09-02 | E-GEOD-31270 | biostudies-arrayexpress
ProteomicsCo-immunoprecipitation of G-quadruplex-containing Core Promoter and nanoLC-FAMIS-MS/MS
G-quadruplexes (G4s) are noncanonical DNA secondary structures formed through the self-association of guanines, and they are distributed widely across the genome. G4 participates in multiple biological processes including gene transcription, and G4-targeted ligands serve as potential therapeutic age...
ORGANISM(S): Homo sapiens (Human) 
2021-07-19 | PXD026830 | Pride
Human Core promoter Co-immunoprecipitation G-quadruplex Nuclear protein Nanolc-famis-ms/ms 
TranscriptomicsControl of Embryonic Stem Cell Lineage Commitment by Core Promoter Factor, TAF3 (RNA-Seq data)
We report that TAF3, a TBP-associated core promoter factor, is highly enriched in ES cells. In addition to its role in the core promoter recognition complex TFIID, genome-wide binding studies reveal that TAF3 localizes to chromosomal regions bound by CTCF and cohesin. Enrichment for TAF3/CTCF/cohesi...
ORGANISM(S): Mus musculus 
2011-09-02 | E-GEOD-31271 | biostudies-arrayexpress
TranscriptomicsIdentification of promoter sequence elements involved in specific recognition by the ?S subunit of bacterial RNA polymerase.
Promoter recognition by bacterial RNA polymerase is mediated by ? subunits, which assemble transiently to RNA polymerase core enzyme (E) during transcription initiation. ? subunits drive transcription of specific sets of genes by allowing RNA polymerase to interact with different promoter sequences....
ORGANISM(S): Escherichia coli str. K-12 substr. MG1655 
2011-05-31 | E-GEOD-22207 | biostudies-arrayexpress
GenomicsThe Kdm5c histone demethylase controls enhancer and promoter function.
Here, we show that the Kdm5c/Smcx member of the Jarid1 family of H3K4 demethylases is recruited to both enhancer and core promoter elements in ES and neuronal progenitor cells (NPC). Knockdown of Kdm5c deregulates transcription via a local increase in H3K4me3. While at core promoters the function of...
ORGANISM(S): Mus musculus 
2013-04-01 | E-GEOD-34975 | biostudies-arrayexpress
GenomicsTranscriptional cofactors display core promoter class-specificity
Transcriptional cofactors display core promoter class-specificity
PRJNA477764 | ENA
TranscriptomicsKin28 Regulates the Transient Association of Mediator with Core Promoters
Mediator is an essential, broadly utilized eukaryotic transcriptional co-activator. How and what it communicates from activators to RNA polymerase II remains an open question. Here we performed genome-wide location profiling of yeast Mediator subunits. Mediator is not found at core promoters but rat...
ORGANISM(S): Saccharomyces cerevisiae 
2014-03-24 | E-GEOD-55402 | biostudies-arrayexpress
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