Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ATAC-Seq of the Yeast Metabolic Cycle

ABSTRACT: ATAC-Seq of the Yeast Metabolic Cycle

PROVIDER: PRJNA610238 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR11235539_1.fastq.gz	Fastqsanger.gz
	SRR11235539_2.fastq.gz	Fastqsanger.gz
	SRR11235540_1.fastq.gz	Fastqsanger.gz
	SRR11235540_2.fastq.gz	Fastqsanger.gz
	SRR11235541_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 36

Similar Datasets

ATAC-Seq of the Yeast Metabolic Cycle

Project description:Time course extraction of the Yeast Metabolic cycle, followed by ATAC seq processing. These files are used in a multi-omics study to complement a series of datasets that cover other moluecular layers of the Yeast Metabolic Cycle, including metabolomics, gene expression and histone modificaiton datasets. Our goal in this project is to create statistical integratory tools to comprehend YMC regulatory mechanism.

2021-04-01 | GSE146350 | GEO

Logic of the yeast metabolic cycle

Project description:affymetrix gene expression data over three successive metabolic cycles Keywords: yeast, time course, metabolic cycle

2005-10-27 | GSE3431 | GEO

Nucleosome Positioning Dynamics Through the Yeast Metabolic Cycle

Project description:We present Micrococcal Nuclease digestion maps of S. cerevisiae through the progression of the Yeast Metabolic Cycle. We demonstrate that nucleosome positions at many promoters are dynamic, and remodeling events at promoters have significant consequences with respect to gene expression. Examination of nucleosome positions and transcriptional output through metabolic oscillations in budding yeast.

2016-03-15 | E-GEOD-77631 | biostudies-arrayexpress

Nucleosome Positioning Dynamics Through the Yeast Metabolic Cycle

2016-03-15 | GSE77631 | GEO

Genome-wide Ifh1p occupancy at the OX growth phase and RC quiescent phase of the yeast metabolic cycle

Project description:We found ribosomal transcription factor Ifh1p is dynamically acetylated and phosphorylated in response to nutrient cues. ChIP-seq data revealed dynamic binding to ribosomal genes (RP) during the OX growth phase of the yeast metabolic cycle (YMC) when RP genes are highly induced, and weaker binding in the RC quiescent-like phase. Besides RP genes, our ChIP-seq data also reveals binding of Ifh1p to non-RP genes such as translation factors and metabolic genes. Examination of Ifh1p binding over two timepoints of the YMC (OX, RC) using Input as the control.

2013-07-05 | E-GEOD-39147 | biostudies-arrayexpress

Genome-wide Ifh1p occupancy at the OX growth phase and RC quiescent phase of the yeast metabolic cycle

2013-07-05 | GSE39147 | GEO

INO80 Chromatin Remodelling Coordinates Metabolic Homeostasis with Cell Division

Project description:We performed RNA-seq across the yeast metabolic cycle (YMC) in wild-type and a strain lacking ARP5, a central component of the INO80 chromatin remodelling complex. We also perform ATAC-seq on the same samples to examine chromatin architecture across the YMC.

2018-01-02 | GSE101290 | GEO

A high-resolution view of transcription and chromatin states across distinct metabolic states in budding yeast

Project description:Under continuous, glucose-limited conditions, budding yeast exhibit robust metabolic cycles associated with major oscillations of gene expression and metabolic state. However, how such fluctuations might be coordinately linked to changes in chromatin status is less well understood. Here, we examine the correlated genome-wide transcription and chromatin states across the yeast metabolic cycle (YMC) at unprecedented temporal resolution, revealing a "just in time supply chain" by which specific cellular processes such as ribosome biogenesis are coordinated in time with remarkable precision. We identify distinct chromatin and splicing patterns associated with different gene categories and determine the relative timing of chromatin modifications to maximal transcription. Additionally, we interrogate chromatin modifier occupancy and observe subtly distinct spatial and temporal patterns compared to the modifications themselves. Furthermore, we identify multiple lysine mutants in H3 or H4 tails that disrupt metabolic cycling, supporting a potentially cooperative role of histone modifications in the YMC. 16 time points RNA-seq and ChIP-seq of 8 histone marks over one metabolic cycle, 14 time points ChIP-seq of 3 chromatin modifiers over one metabolic cycle

2014-08-31 | E-GEOD-52339 | biostudies-arrayexpress

Genome wide H3K9ac and SAGA occupancy at OX growth phase and RC quiescent phase of yeast metabolic cycle

Project description:We found acetyl-CoA levels increase when cells are committed to growth. We also found 3 components of the SAGA complex, Spt7p, Sgf73p and Ada3p as well as histones are dynamically acetylated in tune with the acetyl-CoA levels. ChIP-seq study reveals SAGA and H3K9ac predominantly occupy growth genes at the OX growth phase of the yeast metabolic cycle indicating acetyl-CoA levels may drive growth gene transcription program through acetylation of these proteins. Examination of H3K9ac and SAGA binding over two timepoints using H3 and Input as controls

2011-05-19 | E-GEOD-28734 | biostudies-arrayexpress

Genome wide H3K9ac and SAGA occupancy at OX growth phase and RC quiescent phase of yeast metabolic cycle

2011-05-19 | GSE28734 | GEO