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ProteomicsAcute depletion of CTCF rewires genome-wide chromatin accessibility
The transcription factor CTCF appears indispensable in defining topologically associated domain boundaries and maintaining chromatin loop structures within these domains, supported by numerous functional studies. However, acute depletion of CTCF globally reduces chromatin interactions but does not s...
ORGANISM(S): Homo sapiens (Human) 
2021-07-04 | PXD026484 | Pride
Multiomics Phosphoproteome Ctcf Proteome 
TranscriptomicsRNA-DNA DIFFERENCES IN NASCENT RNA
RNA sequences are expected to be identical to their corresponding DNA sequences. Advances in technologies have enabled deep sequencing of nucleic acids that uncovered exceptions to the one-to-one relationship between DNA and RNA sequences. Previously in human cells, post-transcriptional RNA editin...
ORGANISM(S): Homo sapiens 
2014-02-21 | E-GEOD-39878 | biostudies-arrayexpress
TranscriptomicsIllumina mRNA-Seq of control and hnRNP H knockdown in 293T cells
Pre-mRNA splicing is regulated through combinatorial activity of RNA motifs including splice sites and splicing regulatory elements (SREs). Here, we show that the activity of a major class of mammalian SREs is highly sensitive to the strength of the adjacent 5' splice site (5'ss) sequence, and that...
ORGANISM(S): Homo sapiens 
2009-09-12 | E-GEOD-16642 | biostudies-arrayexpress
TranscriptomicsSignaling Pathways Deferentially Affect RNA Polymerase II Initiation, Pausing, and Elongation in Human Cells: Estrogen dependent signaling in MCF-7 cells
We used Global Run-on and Sequencing (GRO-seq) to measure the rate of transcription elongation by RNA polymerase II (Pol II) following gene activation. We observed that Pol II elongation rates can vary as much as 4-fold at different genomic loci and in response to two distinct cellular signaling pa...
ORGANISM(S): Homo sapiens 
2013-04-10 | E-GEOD-41324 | biostudies-arrayexpress
UnknownForce Dependence of Velocity and Run Length of Kinesin-1, Kinesin-2 and Kinesin-5 Family Molecular Motors.
Not available
S-EPMC6358798 | biostudies-literature
MetabolomicsComprehensive systems biology analysis of a seven-month cigarette smoke inhalation study in C57BL/6 mice
Smoking of combustible cigarettes has a major impact on human health. Using a systems toxicology approach in a model of chronic obstructive pulmonary disease (C57BL/6 mice), we assessed the health consequences in mice of smoke derived from a prototype modified risk tobacco product (pMRTP) as compare...
2015-11-19 | MTBLS143 | MetaboLights
TranscriptomicsEnhancer Activation Requires Trans-Recruitment of a Mega Transcription Factor Complex (Gro-seq)
Enhancers provide critical information directing cell-type specific transcriptional programs, regulated by binding of signal-dependent transcription factors and their associated cofactors. Here we report that the most strongly activated estrogen (E2)-responsive enhancers are characterized by trans-r...
ORGANISM(S): Homo sapiens 
2014-10-09 | E-GEOD-60271 | biostudies-arrayexpress
GenomicsGenome-wide Analysis of Chromatin Interactions in Human Cells
Millions of cis-regulatory sequences have recently been found in the human genome, but the function of most cis-elements are not yet clear, in part due to the difficulty in determining their regulatory targets, which are often located millions of base pairs away and separated by one or more unrelate...
ORGANISM(S): Homo sapiens 
2013-10-20 | E-GEOD-43070 | biostudies-arrayexpress
UnknownLong- and short-run asymmetric impacts of climate variation on tuberculosis based on a time series study.
Not available
S-EPMC11464594 | biostudies-literature
Multiomics(R)-Roscovitine KINOMEscan
For the panel of kinases, the percent of kinase bound by ligand is measured in the presence of (R)-Roscovitine at 10 uM of concentration.
2015-10-06 | LDS-1110 | LINCS
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