Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Expression profiling and H3K4me3 occupancy in WT and jhd2Δ Saccharomyces cerevisiae cells

ABSTRACT: Expression profiling and H3K4me3 occupancy in WT and jhd2Δ Saccharomyces cerevisiae cells

PROVIDER: PRJNA338165 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Chromatin recruitment of Rad6 determines H3K4me3 in Saccharomyces cerevisiae

Project description:Project abstract : The trimethylation of histone H3 lysine 4 (H3K4me3) is a crucial factor in defining the promoter regions of active genes in all eukaryotes ranging from Saccharomyces cerevisiae (yeast) to humans. In budding yeast, this trimethylation process facilitated by the Set1 complex results in H3K4me3 requiring a prior mono-ubiquitination at the histone H2BK123 residue (H2Bub) by E2 enzyme Rad6 and E3 enzyme Bre1. A previous in vitro study suggested that ubiquitinated H2B directly facilitates H3K4me3. However, even low levels of global H2Bub is sufficient for the required H3K4me3 in yeast cells, thereby indicating that other factors resulting in the H2Bub-dependent H3K4me3 remain unknown. This study revealed the high level of correlation of H3K4me3 with chromatin recruitment of Rad6 at the genome-wide level. Rad6 is confirmd to interact and co-localize with Swd2/Cps35, a key factor for the H2Bub-dependent H3K4me3 in genes with high levels of H3K4me3 and intronic genes rather than non-intronic genes. This study therefore provides a mechanistic insight of the H2Bub-Rad6- Swd2/Cps35-H3K4me3 axis and its potential role in RNA biogenesis.

2022-06-07 | GSE146296 | GEO

MNase titration-Seq of Saccharomyces cerevisiae.

Project description:We report change in the nucleosome occupancy and accessibility upon deletion of ATP-dependent chromatin remodellers (ISW1, ISW2 & CHD1) in Saccharomyces cerevisiae.

2024-02-08 | GSE220880 | GEO

Transcriptional profiling of Saccharomyces cerevisiae WT and set4∆ strains during hypoxia

Project description:Purpose: The goal of this study was to globally characterize the transcript levels of genes in Saccharomyces cerevisiae WT and set4∆ strains during hypoxia. Using transcriptome profiling of isogenic WT and set4∆ strains grown under aerobic or 8 hours of hypoxia. We analyzed the changes in gene expression that occur during aerobic and hypoxic conditions and identified sets of upregulated and downregulated gene expression.

2020-07-22 | GSE107492 | 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

Saccharomyces cerevisiae WT and PMR1 gene knockout whole cell LC-ESI-MS/MS

Project description:Characterization of Saccharomyces cerevisiae whole cell proteome comparing WT and PMR1 knockout cells grown for 24 h on synthetic minimal medium containing glucose as carbon source (shaking at 140 rpm, 28ºC)

2022-10-13 | PXD036952 | Pride

Expression data from Saccharomyces cerevisiae

Project description:Saccharomyces cerevisiae is an excellent microorganism for industrial succinic acid production, but high succinic acid concentration will inhibit the growth of Saccharomyces cerevisiae then reduce the production of succinic acid. Through analysis the transcriptomic data of Saccharomyces cerevisiae with different genetic backgrounds under different succinic acid stress, we hope to find the response mechanism of Saccharomyces cerevisiae to succinic acid.

2022-01-09 | GSE193190 | GEO

ChIP seq of H3K4me3 and pan-H3 in WT and jhd2Δ Saccharomyces cerevisiae cells

Project description:We describe the landscape of H3K4me3 in WT and jhd2Δ cells in YAR media by ChIP seq

2016-08-09 | GSE85320 | GEO

Global gene expression analysis of H4T80A mutants vs WT H4 in Saccharomyces cerevisiae

Project description:Global RNA-seq gene expression analysis of H4T80A mutants vs WT H4 in Saccharomyces cerevisiae.

2018-09-05 | E-MTAB-7090 | biostudies-arrayexpress

Proteome of Saccharomyces cerevisiae extracellular matrix

Project description:Proteomic analysis of the extracellular matrix of Saccharomyces cerevisiae W303-1A Wt and the isogenic mutant strain gup1Δ during the development of multicellular overlays.

2015-11-30 | PXD001133 | Pride

Expression data from Saccharomyces cerevisiae WT, WT(hsf1), hac1delta and hac1delta(hsf1)

Project description:In the yeast Saccharomyces cerevisiae, accumulation of misfolded proteins in the endoplasmic reticulum (ER) causes ER stress and activates the unfolded protein response (UPR) mediated by Hac1p, whereas the heat shock response (HSR) mediated by Hsf1p mainly regulates cytosolic processes and protects the cell from different stresses. In this study, we find that a constitutive activation of the HSR by over-expression of a mutant HSF1 gene could relieve ER stress in both wild type and hac1delta UPR-deficient cells. We studied the genome-wide transcriptional response in order to identify regulatory mechanisms that govern the interplay between UPR and HSR responses. Interestingly, we find that the regulation of ER stress via HSR is mainly through facilitation of protein folding and secretion and not via the induction of Rpn4-dependent proteasomal activity. Four Saccharomyces cerevisiae strains, WT, WT(hsf1), hac1delta and hac1delta(hsf1), were grown in SD-URA medium and treated with 2.5 mM DTT. After two hours induction, samples were taken for RNA extraction and hybridization on Affymetrix microarrays. Biological triplicates were applied.

2014-07-01 | E-GEOD-39311 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

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