Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Effect of Tup1 and Isw2 on nucleosome positions in stationary phase.

ABSTRACT: We used MNase-seq to measure nucleosome positions in wild type, tup1 knockouts, and isw2 knockouts.

ORGANISM(S): Saccharomyces cerevisiae

PROVIDER: GSE210929 | GEO | 2022/08/17

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Effect of Tup1 and Isw2 on nucleosome positions in stationary phase.

Project description:Effect of Tup1 and Isw2 on nucleosome positions in stationary phase.

| PRJNA868334 | ENA

Effect of Tup1, Xbp1, Isw2, and Sds3 on H3K23ac in stationary phase.

Project description:To investigate the effect of Tup1, Xbp1, Isw2, and Sds3 on H3K23acc we generated knockout strains and measured H3K23ac levels during stationary phase.

2022-08-17 | GSE210928 | GEO

Mapping Nucleosome positions in WT and delta isw2 cells

Project description:To map nucleosome positions in WT and delta isw2 cells Keywords: Nucleosomal DNA hybridization

2007-09-10 | GSE8814 | GEO

Tup1, Xbp1, Isw2, and Sds3

Project description:Tup1, Xbp1, Isw2, and Sds3

| PRJNA868330 | ENA

Effect of Tup1, Xbp1, Isw2, and Sds3 on transcription in diauxic shift and stationary phase.

Project description:To investigate the effect of Tup1, Xbp1, Isw2, and Sds3 on transcription we generated knockout strains and measured their transcript abundance compared to wild type during diauxic shift and stationary phase.

2022-08-17 | GSE210930 | GEO

Effect of Tup1, Xbp1, Isw2, and Sds3 on H3K23ac in stationary phase.

Project description:Effect of Tup1, Xbp1, Isw2, and Sds3 on H3K23ac in stationary phase.

| PRJNA868335 | ENA

Global Regulation of Nucleosome Organization And Transcription By The Yeast Ssn6-Tup1 Corepressor (MNase-Seq)

Project description:The yeast Ssn6-Tup1 complex regulates gene expression through a variety of mechanisms, including positioning of nucleosomes over promoters of some target genes to limit accessibility to the transcription machinery. To further define the functions of Ssn6-Tup1 in gene regulation and chromatin remodeling, we performed genome-wide profiling of changes in nucleosome organization and gene expression that occur upon loss of SSN6 or TUP1, and observed extensive nucleosome alterations in both promoters and gene bodies of derepressed genes. Our improved nucleosome profiling and analysis approaches revealed low-occupancy promoter nucleosomes (P nucleosomes) at locations previously defined as nucleosome-free regions. In the absence of SSN6 or TUP1, this P nucleosome is frequently lost, whereas nucleosomes are gained at -1 and +1 positions, accompanying up-regulation of downstream genes. Our analysis of public ChIP-seq data revealed that Ssn6 and Tup1 preferentially bind TATA-containing promoters, which are also enriched in genes derepressed upon loss of SSN6 or TUP1. These results suggest that stabilization of the P nucleosome on TATA-containing promoters may be a central feature of the repressive chromatin architecture created by the Ssn6-Tup1 corepressor, and that releasing the P nucleosome contributes to gene activation. nucleosomes were prepared from isogenic wild type (BY4742), ssn6 KO and tup1 KO cells after varying degrees of micrococcal nuclease (MNase) digestion, followed by isolation of mononucleosomal DNA and sequencing. Three replicates of each strain (9 samples) were subjected to Illumina sequencing.

2012-10-10 | E-GEOD-37465 | biostudies-arrayexpress

Global Regulation of Nucleosome Organization And Transcription By The Yeast Ssn6-Tup1 Corepressor

Project description:This SuperSeries is composed of the following subset Series: GSE37465: Global Regulation of Nucleosome Organization And Transcription By The Yeast Ssn6-Tup1 Corepressor (MNase-Seq) GSE37466: Global Regulation of Nucleosome Organization And Transcription By The Yeast Ssn6-Tup1 Corepressor (expression) Refer to individual Series

2012-10-10 | E-GEOD-37467 | biostudies-arrayexpress

Effect of Tup1, Xbp1, Isw2, and Sds3 on transcription in diauxic shift and stationary phase.

Project description:Effect of Tup1, Xbp1, Isw2, and Sds3 on transcription in diauxic shift and stationary phase.

| PRJNA868337 | ENA

Sequence-Targeted Nucleosome Sliding in vivo - Nucleosome Mapping

Project description:Nucleosome positions were determined in wild type cells, cells lacking Isw2 or Ume6, and cells containing a hybrid Chd1-Ume6 chimeric remodeler Matched MNase digests from W303 strain variants during log growth (OD600=0.4-0.6) were subject to paired-end sequencing for nucleosome mapping. For effects of the engineered fusion remodeling protein, a catalytically inactive (ATPase dead D513N) variant was included as a control.

2016-03-12 | E-GEOD-72570 | 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