Similar studies for GEO DataSets (Select 200064921) - GEO DataSets

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Items: 20

Select item 2000649211.

Determination of the nascent transcriptional rates in a TEToff::ARB1 conditional mutant.

(Submitter supplied) Transcription of eukaryotic genes involves dynamic interactions between RNA polymerases and chromatin that are facilitated by auxiliary factors. One of these chromatin factors is Spt6, encoded by an essential gene that plays regulatory functions throughout all eukaryotes, from yeast to human. We have performed a genetic analysis of Spt6 function by isolating yeast mutations that confer synthetic-lethality to a conditional spt6 allele under permissive conditions. more...

Organism:: Saccharomyces cerevisiae

Type:: Other; Genome binding/occupancy profiling by array

Platform:: GPL8568
32 Samples

Download data: TXT

Series

Accession:: GSE64921

ID:: 200064921

PubMed Full text in PMC Similar studies

Select item 2001118152.

Spt6 association with RNAPII directs mRNA turnover during transcription

(Submitter supplied) Spt6 is an essential histone chaperone that mediates nucleosome reassembly during gene transcription. Spt6 interacts with elongating RNA polymerase II (RNAPII) via a tandem Src2 homology (tSH2) domain, but it is not known whether this particular interaction is required for the nucleosome reassembly activity of Spt6. Here, we show that Spt6 recruitment to genes and its nucleosome reassembly functions are largely independent of association with RNAPII. more...

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17342
12 Samples

Download data: BW, TXT

Series

Accession:: GSE111815

ID:: 200111815

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001166463.

A conserved genetic interaction between Spt6 and Set2 regulates H3K36 methylation

(Submitter supplied) The transcription elongation factor Spt6 and the H3K36 methyltransferase Set2 are both required for H3K36 methylation and transcriptional fidelity in Saccharomyces cerevisiae. By selecting for suppressors of a transcriptional defect in an spt6 mutant, we have isolated dominant SET2 mutations (SET2sup mutations) in a region encoding a proposed autoinhibitory domain. The SET2sup mutations suppress the H3K36 methylation defect in the spt6 mutant, as well as in other mutants that impair H3K36 methylation. more...

Organism:: Saccharomyces cerevisiae

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL19756
48 Samples

Download data: BEDGRAPH

Series

Accession:: GSE116646

ID:: 200116646

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001157754.

Spt6 is required for the fidelity of promoter selectivity

(Submitter supplied) Spt6 is a conserved factor that controls transcription and chromatin structure across the genome. Although viewed as an elongation factor, spt6 mutations allow transcription from within coding regions, suggesting that Spt6 also controls initiation. To comprehensively characterize the requirement for Spt6 in transcription, we have used four approaches: TSS-seq and TFIIB ChIP-nexus to assay transcription initiation, NET-seq to assay elongating RNAPII, and MNase-seq to assay nucleosome occupancy and positioning. more...

Organism:: Saccharomyces cerevisiae

Type:: Genome binding/occupancy profiling by high throughput sequencing; Other

Platforms:: GPL13821 GPL19756 GPL17143
21 Samples

Download data: BW

Series

Accession:: GSE115775

ID:: 200115775

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Select item 2001345345.

Genome-wide binding of Rpb1 (the largest subunit of the RNA polymerase II) to the chromatin state in bud27∆ and wild-type mutant strains (ChIP-seq)

(Submitter supplied) Comparison of the average normalised ChIP-seq signal over protein-coding genes in bud27∆ mutants strain and wild-type.

Organism:: Saccharomyces cerevisiae

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL13821
8 Samples

Download data: BW

Series

Accession:: GSE134534

ID:: 200134534

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001313906.

Prefoldin-like Bud27 influences the transcription of ribosomal components and ribosome biogenesis in Saccharomyces cerevisiae

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Saccharomyces cerevisiae

Type:: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platform:: GPL13821
18 Samples

Download data: BW

Series

Accession:: GSE131390

ID:: 200131390

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Select item 2001313897.

Global analyisis to study the bud27∆ and WT treated with rapamycin regarding to WT [RNA-seq]

(Submitter supplied) RNA extraction for global analyisis and sequencing, to study the bud27∆ mutant and WT treated with rapamycin regarding to WT.

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13821
6 Samples

Download data: TXT

Series

Accession:: GSE131389

ID:: 200131389

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Select item 2001313888.

Genome-wide maps of Bud27 binding to the chromatin [ChIP-seq]

(Submitter supplied) The goal of this study is to analyse genome-wide the binding profile of Bud27 prefoldin-like to the genes or other genomic regions in order to know which genes could be transcriptionally regulated by this protein and to elucidate the contribution of Bud27 to the transcription. Average normalised ChIP-seq signal for Bud27 prefoldin-like binding in a S.cerevisiae wild-type strain.

Organism:: Saccharomyces cerevisiae

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL13821
4 Samples

Download data: BW

Series

Accession:: GSE131388

ID:: 200131388

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001719539.

The histone chaperone Spt6 is required for normal recruitment of the capping enzyme Abd1 to transcribed regions

(Submitter supplied) The histone chaperone Spt6 is involved in promoting elongation of RNA polymerase II (RNAPII), maintaining chromatin structure, regulating co-transcriptional histone modifications, and controlling mRNA processing. These diverse functions of Spt6 are partly mediated through its interactions with RNAPII and other factors in the transcription elongation complex. In this study, we used mass spectrometry to characterize the differences in RNAPII interacting factors between wild-type cells and those depleted for Spt6, leading to the identification of proteins that depend on Spt6 for their interaction with RNAPII. more...

Organism:: Saccharomyces cerevisiae

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL19756
24 Samples

Download data: BEDGRAPH

Series

Accession:: GSE171953

ID:: 200171953

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Select item 20019400110.

RNA-seq of WT and shrek1 kernels at 13DAP

(Submitter supplied) To investigate the biological functions of SHREK1 in seed development, we compared the transcriptome profiles between the WT and shrek1 kernels at 13DAP by RNA-seq.

Organism:: Zea mays

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24163
6 Samples

Download data: TXT

Series

Accession:: GSE194001

ID:: 200194001

PubMed Full text in PMC Similar studies

Select item 20010908011.

Casein Kinase 2 Mediated Phosphorylation of Spt6 Modulates Histone dynamics and Regulates Spurious Transcription

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL13821
14 Samples

Download data: BW, TXT

Series

Accession:: GSE109080

ID:: 200109080

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Select item 20010907812.

Casein Kinase 2 Mediated Phosphorylation of Spt6 Modulates Histone dynamics and Regulates Spurious Transcription (ChIP-Seq)

(Submitter supplied) CK2 is an essential protein kinase implicated in various cellular processes. In this study, we address a potential role of this kinase in chromatin modulations associated with transcription. We found that CK2 depletion from yeast cells leads to replication-independent increase of histone H3K56 acetylation and global activation of H3 turnover in coding regions. This suggests a positive role of CK2 in maintenance/recycling of the histone H3/H4 tetramers during transcription. more...

Organism:: Saccharomyces cerevisiae

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL13821
8 Samples

Download data: BW

Series

Accession:: GSE109078

ID:: 200109078

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20010848213.

Casein Kinase 2 Mediated Phosphorylation of Spt6 Modulates Histone dynamics and Regulates Spurious Transcription (RNA-Seq)

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13821
6 Samples

Download data: TXT

Series

Accession:: GSE108482

ID:: 200108482

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20018983114.

The interaction between the Spt6-tSH2 domain and Rpb1 affects multiple functions of RNA Polymerase II [MNase-seq]

(Submitter supplied) The conserved transcription elongation factor Spt6 makes several contacts with the RNA Polymerase II (RNAPII) complex, including a high-affinity interaction between the Spt6 tandem SH2 domain (Spt6-tSH2) and phosphorylated residues of the Rpb1 subunit in the linker between the catalytic core and the C-terminal domain (CTD) heptad repeats. This interaction contributes to generic localization of Spt6, but we show here that it also has gene-specific roles. more...

Organism:: Saccharomyces cerevisiae

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL27812
6 Samples

Download data: BW

Series

Accession:: GSE189831

ID:: 200189831

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Select item 20018495515.

Spt6-tSH2 domain and Rpb1

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL17342 GPL27812
48 Samples

Download data

Series

Accession:: GSE184955

ID:: 200184955

PubMed Full text in PMC Similar studies

Select item 20018495416.

The interaction between the Spt6-tSH2 domain and Rpb1 affects multiple functions of RNA Polymerase II

(Submitter supplied) The conserved transcription elongation factor Spt6 makes several contacts with the RNA Polymerase II (RNAPII) complex, including a high-affinity interaction between the Spt6 tandem SH2 domain (Spt6-tSH2) and phosphorylated residues of the Rpb1 subunit in a region linking the catalytic core and the heptad repeats at the C-terminal domain (CTD). This interaction contributes to generic localization of Spt6, but we show here that it also has gene-specific roles. more...

Organism:: Saccharomyces cerevisiae

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL17342
21 Samples

Download data: BW

Series

Accession:: GSE184954

ID:: 200184954

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20017442717.

The Spt6-tSH2 domain coordinates functional transitions of the RNA Polymerase II CTD during initiation and elongation.

(Submitter supplied) The conserved transcription elongation factor Spt6 makes several contacts with the RNA Polymerase II (RNAPII) complex, including a high-affinity interaction between the Spt6 tandem SH2 domain (Spt6-tSH2) and phosphorylated residues in Rpb1 in a region between the catalytic core and the heptad repeats of its C-terminal domain (CTD). This interaction contributes to the global occupancy of Spt6 within transcription units, suggesting that it has a general role in tethering Spt6 to the elongation complex. more...

Organism:: Saccharomyces cerevisiae

Type:: Expression profiling by high throughput sequencing

Platform:: GPL27812
21 Samples

Download data: BW, XLSX

Series

Accession:: GSE174427

ID:: 200174427

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20011327018.

Histone Recycling by FACT and Spt6 during Transcription Prevents the Scrambling of Histone Modifications

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Saccharomyces cerevisiae

Type:: Genome binding/occupancy profiling by genome tiling array; Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL18340 GPL24876 GPL17342
316 Samples

Download data: BIGWIG, GPR

Series

Accession:: GSE113270

ID:: 200113270

Select item 20011321319.

Histone Recycling by FACT and Spt6 during Transcription Prevents the Scrambling of Histone Modifications [ChIP-seq]

(Submitter supplied) The genetic information encoded in DNA is framed by additional layers of information, referred to as the epigenome. Epigenetic marks such as DNA methylation, histone modifications and histone variants are concentrated on specific genomic sites as means to instruct, but also sometimes as a consequence of, gene expression. How this information is maintained, notably in the face of transcription, is not understood. more...