Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Saccharomyces cerevisiae

ABSTRACT: Genome-wide mapping of yeast RNA polymerase II termination

PROVIDER: PRJNA243299 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR1212400.fastq.gz	Fastqsanger.gz
	SRR1212401.fastq.gz	Fastqsanger.gz
	SRR1212402.fastq.gz	Fastqsanger.gz
	SRR1212403.fastq.gz	Fastqsanger.gz
	SRR1212404.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 9

Similar Datasets

Saccharomyces cerevisiae

Project description:Genome-wide analysis of RNA polymerase II termination at protein-coding genes

| PRJNA315202 | ENA

Saccharomyces cerevisiae

Project description:Budding yeast RNA polymerase II CTD phosphorylation and transcription termination factor localization

| PRJNA130385 | ENA

Saccharomyces cerevisiae

Project description:Genome-wide distribution of yeast RNA polymerase II and its control by Sen1 helicase

| PRJNA100605 | ENA

Saccharomyces cerevisiae

Project description:Pol II localization in yeast termination mutants

| PRJNA100501 | ENA

Saccharomyces cerevisiae

Project description:RNA Polymerase II CTD phosphatase Rtr1 restricts noncoding transcript termination by Nrd1

| PRJNA345490 | ENA

Saccharomyces cerevisiae

Project description:RNA polymerase II

| PRJNA93827 | ENA

Genome-wide binding of THO and Sub2 in Saccharomyces cerevisiae

Project description:THO/TREX is a conserved nuclear complex that functions in mRNP biogenesis and prevents transcription-associated recombination. Whether or not it has a ubiquitous role in the genome is an open question. ChIP-chip studies reveal that the Hpr1 component of THO and the Sub2 RNA-dependent ATPase have genome wide-distributions at active ORFs in yeast. In contrast to RNAPII, evenly distributed from promoter to termination regions, THO and Sub2 are absent at promoters and distributed in a sharp 5M-bM-^@M-^YM-bM-^FM-^R3M-bM-^@M-^Y gradient. Importantly, ChIP-chips reveal an over-recruitment of Rrm3 in active genes in THO mutants that is reduced by overexpression of RNase H1. Our work establishes a genome-wide function for THO-Sub2 in transcription elongation and mRNP biogenesis that function to prevent the accumulation of transcription-mediated replication obstacles, including R-loops. ChIP-chip studies were perfomed with tagged forms of the Hpr1 component of THO (Hpr1-FLAG), the Sub2 RNA-dependent ATPase of TREX (Sub2-FLAG), the Rpb3 subunit of RNA polymerase II (Rpb3-PK) and the Rrm3 protein (Rrm3-FLAG) in the yeast S. cerevisiae.

2011-06-28 | E-GEOD-24960 | biostudies-arrayexpress

Human helicase RECQL5-Flag ChIP DNA from Saccharomyces cerevisiae strain W303-1AR5, asynchronous culture

Project description:We expressed human RECQL5 in the yeast model Sacharomyces cerevisiae. Being RECQL5 the only member of the family shown to interact with the RNA polymerase II we explored the recruitment of RECQL5 to chromatin. Data reveal a genome wide recruitment of RECQL5 at actively transcribed regions that increases toward the 3’ end of the gene.

2025-01-15 | GSE180107 | GEO

Nucleosome depletion in Saccharomyces cerevisiae terminator

Project description:H3 ChIP and input DNA were hybridized to Affymetrix GeneChip S. cerevisiae Tiling 1.0R Array Genome-wide mapping of nucleosomes generated by micrococcal nuclease (MNase) suggests that yeast promoter and terminator regions are very depleted of nucleosomes, predominantly because their DNA sequences intrinsically disfavor nucleosome formation. However, MNase has strong DNA sequence specificity that favors cleavage at promoters and terminators and accounts for some of the correlation between occupancy patterns of nucleosomes assembled in vivo and in vitro. Using an improved method for measuring nucleosome occupancy in vivo that does not involve MNase, we confirm that promoter regions are strongly depleted of nucleosomes, but find that terminator regions are much less depleted than expected. Unlike at promoter regions, nucleosome occupancy at terminators is strongly correlated with the orientation of and distance to adjacent genes. In addition, nucleosome occupancy at terminators is strongly affected by growth conditions, indicating that it is not primarily determined by intrinsic histone-DNA interactions. Rapid removal of RNA polymerase II (Pol II) causes increased nucleosome occupancy at terminators, strongly suggesting a transcription-based mechanism of nucleosome depletion. However, the distinct behavior of terminator regions and their corresponding coding regions suggests that nucleosome depletion at terminators is not simply associated with passage of Pol II, but rather involves a distinct mechanism linked to 3’ end formation.

2010-09-21 | GSE23778 | GEO

Genome-wide occupancy of Bye1, TFIIS and Pol II in yeast Saccharomyces cerevisiae by ChIP-chip

Project description:The aim of this experiment is to assess the genome-wide occupancy of Bye1, TFIIS and RNA polymerase II in yeast Saccharomyces cerevisiae by ChIP-chip

2014-12-05 | E-MTAB-2161 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data