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TranscriptomicsThreonine-4 of the budding yeast RNAP II CTD couples transcription with Htz1-mediated chromatin remodeling
The C-terminal domain (CTD) of the largest subunit of RNA polymerase II (RNAP II) consists of repeated YSPTSPS heptapeptides and connects transcription with cotranscriptional events. Threonine-4 (Thr4) of the CTD repeats has been shown to function in histone mRNA 3'-end processing in chicken cells a...
ORGANISM(S): Saccharomyces cerevisiae 
2014-08-08 | E-GEOD-60181 | biostudies-arrayexpress
ProteomicsCrosslinking/mass spectrometry analysis of Bacillus subtilis RNAP-Delta-HelD complexes
Crosslinking mass spectrometry was applied to investigate protein contacts and dramatic structural rearrangements triggered by HelD binding to RNAP. Four complexes RNAPΔδΔHelD , RNAPΔδΔHelD-δ, RNAPΔδΔHelD-HelD and RNAPΔδΔHelD-δ-HelD were assembled using RNAP purified from B. subtilis ΔhelDΔropE stra...
ORGANISM(S): Cellular Organisms 
2020-10-26 | PXD019437 | JPOST Repository
GenomicsGenome-wide mapping of CarD, RNAPs, and RNAPb on the Mycobacterium smegmatis genome using Chromatin Immunoprecipitation Sequencing
CarD is an essential mycobacterial protein that we had previously shown to bind the RNA polymerase (RNAP) and affect the transcriptional profile of M. smegmatis and Mycobacterium tuberculosis. For this reason, we suspected that CarD was directly regulating transcriptional complexes but we did not kn...
ORGANISM(S): Mycobacterium smegmatis 
2013-08-01 | E-GEOD-48164 | biostudies-arrayexpress
TranscriptomicsChAP-chip analysis of RpoC binding profiles on the B. subtilis chromosome in the intact and the C-terminal truncated RNAP alpha subunit expressing cells.
We constructed the B. subtilis strains in which the expression of the intact and the C-terminal truncated RNAP alpha subunit were induced by different stimulus, IPTG and xylose, under the control of Pspac and Pxyl promoters. Then, we performed ChAP-chip analysis to analyze the impact of M-^UM-^AM-A-...
ORGANISM(S): Bacillus subtilis subsp. subtilis str. 168 
2015-06-25 | E-MTAB-3384 | biostudies-arrayexpress
TranscriptomicsChIP-chip of Geobacter sulfurreducens PCA with antibody against RNAP and RpoD under various conditions
We applied a ChIP-chip approach to elucidate the binding profiles of RNAP and RpoD experimentally under different growth conditions. This technique localizes DNA fragments within DNA-protein complexes enriched by chromatin immunoprecipitation using high-density oligonucleotide tilling arrays. A 21 C...
ORGANISM(S): Geobacter sulfurreducens PCA 
2010-07-01 | E-GEOD-22503 | biostudies-arrayexpress
TranscriptomicsBase J represses genes at the end of polycistronic gene clusters in Leishmania major by promoting RNAP II termination
Base J and H3.V promote RNA Polymerase (RNAP) II termination within polycistronic gene clusters in the kinetoplastid species Trypanosoma brucei. Although base J has been shown to promote RNAP II termination in the related kinetoplastid species Leishmania major and Leishmania tarentolae, the role of ...
ORGANISM(S): Leishmania major 
2016-07-20 | E-GEOD-77632 | biostudies-arrayexpress
GenomicsFunctional association of Gdown1 with RNA Polymerase II in Human
Most human genes are loaded with promoter proximally paused RNA polymerase II (RNAP II) molecules that are poised for release into productive elongation by P-TEFb. Gdown1, a protein that renders RNAP II responsive to mediator, is involved in RNAP II elongation control. During in vitro transcription ...
ORGANISM(S): Homo sapiens 
2012-01-13 | E-GEOD-32442 | biostudies-arrayexpress
TranscriptomicsChIP-chip of RNA Polymerase (RNAP) and RpoD in Salmonella enterica serovar Typhimurium strain SL1344
ChIP-on-chip analysis of RNAP and RpoD binding to the Salmonella enterica serovar Typhimurium chromosome demonstrated a high degree of overlap between RNAP and RpoD binding and provided us with important insights into the global distribution of these factors. Furthermore this data was correlated wit...
ORGANISM(S): Salmonella enterica subsp. enterica serovar Typhimurium 
2012-02-16 | E-GEOD-35827 | biostudies-arrayexpress
GenomicsNELF-dependent transcription activation
Jurkat T-cells were latently infected with a defective HIV provirus carrying a GFP reporer gene. The cells were superinfected with a lentiviral vector expressing shRNA to NELF-E. The impact of NELF-depletion on RNAP II distribution on cellular genes and the HIV provirus was measured by ChIP-Seq. D...
ORGANISM(S): Homo sapiens 
2014-03-26 | E-GEOD-47481 | biostudies-arrayexpress
ProteomicsProteins of anti-sigma70 and anti-RNAP immunoprecipitates in bacteria
As part of the project aimed at the interaction of RNA with RNA polymerase and primary sigma factor in bacteria we analyzed anti-σ70 antibody immunoprecipitates from Mycobacterium smegmatis stationary phase to identify proteins in σA complex in non-treated cells. We performed mass spectrometry analy...
ORGANISM(S): Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) Corynebacterium glutamicum ATCC 13032 
2024-03-06 | PXD047705 | Pride
Sigma a Rnap Transcription Corynebacterium glutamicum Mycobacterium smegmatis 
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