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GenomicsDeconvolution ChIP-seq profiling of UBF and RPA194 in K562 cells to identify analogous enhancer structures on mouse and human ribosomal RNA genes
The combination of Chromatin Immunoprecipitation and Massively Parallel Sequencing, or ChIP-Seq, has greatly advanced our genome-wide understanding of chromatin and enhancer structures. However, its resolution at any given genetic locus is limited by several factors. In applying ChIP-Seq to study th...
ORGANISM(S): Homo sapiens 
2017-12-31 | E-MTAB-6032 | biostudies-arrayexpress
TranscriptomicsCellular and gene expression patterns associated with root bifurcation in Selaginella
To identify possible molecular mechanisms with a role in root branching initiation in S. moellendorffii, we employed the developmental root branching assay for an RNA-seq experiment and sampled root tips on each day from 0 to 5 d after the first branching (time point 0), in which 300 µm apical parts...
ORGANISM(S): Selaginella moellendorffii 
2022-02-12 | E-MTAB-11402 | biostudies-arrayexpress
TranscriptomicsUBF Is An Epigenetic Factor Required For Ribosomal RNA Gene Activity And Preinitiation Complex Assembly But Not For Nucleolar Body Formation
Upstream Binding Factor (UBF) is a unique multi-HMGB-box protein first identified as a co-factor in RNA polymerase I (RPI/PolI) transcription. However, its poor DNA sequence selectivity and its ability to generate nucleosome-like nucleoprotein complexes suggest a more generalized role in chromatin s...
ORGANISM(S): Mus musculus 
2014-08-19 | E-GEOD-55450 | biostudies-arrayexpress
TranscriptomicsCooperative binding of DNA sequence non-specific HMGbox Factor Ubf and TBP-TAF complex SL1 determines RNA Polymerase I promoter recognition in vivo and its dysfunction underlies the Ubf-E210K neuroregression syndrome
Transcription of the >200 rRNA genes (rDNA) by RNA Polymerase I (RPI) determines as much as 35% of total nuclear RNA synthesis and is a major determinant of cell growth implicated in a range of hypertrophic and developmental disorders. Activation of the rDNA involves the formation of an extended nuc...
ORGANISM(S): Mus musculus 
2021-08-31 | E-MTAB-10433 | biostudies-arrayexpress
GenomicsCooperative binding of DNA sequence non-specific HMGbox Factor Ubf and TBP-TAF complex SL1 determines RNA Polymerase I promoter recognition in vivo and its dysfunction underlies the Ubf-E210K neuroregression syndrome
Transcription of the >200 rRNA genes (rDNA) by RNA Polymerase I (RPI) determines as much as 35% of total nuclear RNA synthesis and is a major determinant of cell growth implicated in a range of hypertrophic and developmental disorders. Activation of the rDNA involves the formation of an extended nuc...
ORGANISM(S): Mus musculus 
2022-02-03 | E-MTAB-11385 | biostudies-arrayexpress
TranscriptomicsExpression of sense and antisense transcripts at the ribosomal locus
Epigenetic methyl-CpG silencing of the ribosomal RNA (rRNA) genes is thought to down-regulate rRNA synthesis in mammals. In contrast, we now show that CpG methylation in fact positively influences rRNA synthesis and processing. Human HCT116 cells, inactivated for DNMT1 and DNMT3b or treated with aza...
ORGANISM(S): Homo sapiens 
2010-05-16 | E-GEOD-17042 | biostudies-arrayexpress
UnknownDeep learning enhanced ALPS reveals genetic and environmental factors of brain glymphatic function.
Not available
S-EPMC12878677 | biostudies-literature
UnknownThe impact of surgical delay on resectability of colorectal cancer: An international prospective cohort study.
Not available
S-EPMC9322431 | biostudies-literature
UnknownEffect of COVID-19 pandemic lockdowns on planned cancer surgery for 15 tumour types in 61 countries: an international, prospective, cohort study.
Not available
S-EPMC8492020 | biostudies-literature
UnknownA prognostic model for use before elective surgery to estimate the risk of postoperative pulmonary complications (GSU-Pulmonary Score): a development and validation study in three international cohorts.
Not available
S-EPMC12056793 | biostudies-literature
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