Similar studies for GEO DataSets (Select 200041642) - GEO DataSets

Select item 2000416421.

RNAi triggered by specialized machinery silences developmental genes and retrotransposons (ChIP-chip)

(Submitter supplied) RNAi is a conserved mechanism in which small interfering RNAs (siRNAs) guide the degradation of cognate RNAs, but also promote heterochromatin assembly at repetitive DNA elements such as centromeric repeats. However, the full extent of RNAi functions and its endogenous targets have not been explored. Here we show that in the fission yeast Schizosaccharomyces pombe, RNAi and heterochromatin factors cooperate to silence diverse loci, including sexual differentiation genes, genes encoding transmembrane proteins, and retrotransposons that are also targeted by the exosome RNA degradation machinery. more...

Organism:: Schizosaccharomyces pombe

Type:: Genome binding/occupancy profiling by array

Platform:: GPL6503
8 Samples

Download data: TXT

Series

Accession:: GSE41642

ID:: 200041642

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2000416432.

RNAi triggered by specialized machinery silences developmental genes and retrotransposons

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

Organism:: Schizosaccharomyces pombe; Drosophila melanogaster

Type:: Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing; Genome binding/occupancy profiling by array

4 related Platforms
17 Samples

Download data: SGR, TXT

Series

Accession:: GSE41643

ID:: 200041643

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Select item 2000416343.

RNAi triggered by specialized machinery silences developmental genes and retrotransposons (RNA-Seq)

(Submitter supplied) RNAi is a conserved mechanism in which small interfering RNAs (siRNAs) guide the degradation of cognate RNAs, but also promote heterochromatin assembly at repetitive DNA elements such as centromeric repeats. However, the full extent of RNAi functions and its endogenous targets have not been explored. Here we show that in the fission yeast Schizosaccharomyces pombe, RNAi and heterochromatin factors cooperate to silence diverse loci, including sexual differentiation genes, genes encoding transmembrane proteins, and retrotransposons that are also targeted by the exosome RNA degradation machinery. more...

Organism:: Schizosaccharomyces pombe; Drosophila melanogaster

Type:: Expression profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platforms:: GPL15167 GPL16192 GPL13304
9 Samples

Download data: SGR

Series

Accession:: GSE41634

ID:: 200041634

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000761144.

Expression profiling and ChIP-chip of Schizosaccharomyces pombe strains wildtype, erh1∆, and ccr4∆

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

Organism:: Schizosaccharomyces pombe

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

Platforms:: GPL6503 GPL16192
21 Samples

Download data: FPKM_TRACKING, TXT

Series

Accession:: GSE76114

ID:: 200076114

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Select item 2000761125.

Expression profiling of fission yeast strains: wild-type, erh1∆, and ccr4∆

(Submitter supplied) We report gene expression profiling in the fission yeast Schizosaccharomyces pombe. We performed high-throughput sequencing of RNA isolated from wild-type, erh1∆, and ccr4∆ strains. We find that many meiotic gene containing degradation sequence DSR are expressed in vegetative erh1∆, while these meiotic mRNAs do not increase in ccr4∆, indicating that Erh1 and Ccr4 target different set of genes during vegetative growth.

Organism:: Schizosaccharomyces pombe

Type:: Expression profiling by high throughput sequencing

Platform:: GPL16192
5 Samples

Download data: FPKM_TRACKING

Series

Accession:: GSE76112

ID:: 200076112

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Select item 2000761116.

The fission yeast Schizosaccharomyces pombe: H3K9me2, Erh1-GFP and CFP-Mmi1 ChIP-chip

(Submitter supplied) ChIP-chip analyses of H3K9me2 (in WT, erh1∆, mmi1∆ and ccr4∆), Erh1-GFP (in WT and mmi1∆) and CFP-Mmi1 (in WT)

Organism:: Schizosaccharomyces pombe

Type:: Genome binding/occupancy profiling by genome tiling array

Platform:: GPL6503
16 Samples

Download data: TXT

Series

Accession:: GSE76111

ID:: 200076111

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Select item 2000591717.

RNA expression profiling for Paf1 complex mutant strains

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

Organism:: Schizosaccharomyces pombe

Type:: Expression profiling by genome tiling array; Non-coding RNA profiling by high throughput sequencing

Platforms:: GPL7715 GPL13988
24 Samples

Download data: CEL, WIG

Series

Accession:: GSE59171

ID:: 200059171

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Select item 2000591708.

RNA expression profiling for Paf1 complex mutant strains [miRNA]

(Submitter supplied) Small RNA molecules are well known for silencing gene expression post-transcriptionally, but they are also implicated in epigenetic regulation across kingdoms. However, the mechanisms of epigenetic gene silencing by small RNAs are mostly unknown. In addition, stably silencing genes de novo using synthetic small RNAs to trigger locus-independent heterochromatin formation is impossible. Using fission yeast, we show that RNA-directed heterochromatin formation is negatively controlled by the highly conserved RNA polymerase-associated factor 1 (Paf1) complex. more...

Organism:: Schizosaccharomyces pombe

Type:: Non-coding RNA profiling by high throughput sequencing

Platform:: GPL13988
8 Samples

Download data: TAB, WIG

Series

Accession:: GSE59170

ID:: 200059170

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000591699.

RNA expression profiling for Paf1 complex mutant strains [mRNA]

(Submitter supplied) Small RNA molecules are well known for silencing gene expression post-transcriptionally, but they are also implicated in epigenetic regulation across kingdoms. However, the mechanisms of epigenetic gene silencing by small RNAs are mostly unknown. In addition, stably silencing genes de novo using synthetic small RNAs to trigger locus-independent heterochromatin formation is impossible. Using fission yeast, we show that RNA-directed heterochromatin formation is negatively controlled by the highly conserved RNA polymerase-associated factor 1 (Paf1) complex. more...

Organism:: Schizosaccharomyces pombe

Type:: Expression profiling by genome tiling array

Platform:: GPL7715
16 Samples

Download data: CEL, TAB

Series

Accession:: GSE59169

ID:: 200059169

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Select item 20009582110.

Tailing and degradation of Argonaute-bound small RNAs protect the genome from uncontrolled RNAi

(Submitter supplied) RNAi is a conserved mechanism in which small RNAs induce silencing of complementary targets. How Argonaute-bound small RNAs are targeted for degradation is not well understood. We show here that the adenyl-transferase Cid14, a member of the TRAMP complex, and the uridyl-transferase Cid16 add non-templated nucleotides to Argonaute-bound small RNAs in fission yeast. The tailing of Argonaute-bound small RNAs in vitro recruits the 3’-5’ exonuclease Rrp6 to degrade small RNAs. more...

Organism:: Schizosaccharomyces pombe

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platform:: GPL22681
30 Samples

Download data: TDF

Series

Accession:: GSE95821

ID:: 200095821

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Select item 20007474111.

A conserved factor Dhp1/Rat1/Xrn2 triggers premature transcription termination and nucleates heterochromatin to promote gene silencing

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

Organism:: Schizosaccharomyces pombe

Type:: Non-coding RNA profiling by high throughput sequencing; Genome binding/occupancy profiling by genome tiling array

Platforms:: GPL16192 GPL6503
12 Samples

Download data: SGR, TXT

Series

Accession:: GSE74741

ID:: 200074741

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20007474012.

A conserved factor Dhp1/Rat1/Xrn2 triggers premature transcription termination and nucleates heterochromatin to promote gene silencing [ChIP-chip]

(Submitter supplied) Occupancy profiling of lysine 9 dimethylated histone H3 in fission yeast. Occupancy profiling of Red1, Mtl1, and Mmi1 proteins in fission yeast.

Organism:: Schizosaccharomyces pombe

Type:: Genome binding/occupancy profiling by genome tiling array

Platform:: GPL6503
10 Samples

Download data: TXT

Series

Accession:: GSE74740

ID:: 200074740

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Select item 20007473913.

A conserved factor Dhp1/Rat1/Xrn2 triggers premature transcription termination and nucleates heterochromatin to promote gene silencing [sRNA-seq]

(Submitter supplied) Co-transcriptional RNA processing and surveillance factors mediate heterochromatin formation in fission yeast. In addition to RNAi, RNA elimination machinery including MTREC (Mtl1-Red1 core) and the exosome are involved in facultative heterochromatin assembly, however, the exact mechanisms remain unclear. Here we show that RNA elimination factors cooperate with the conserved exoribonuclease Dhp1/Rat1/Xrn2, which couples pre-mRNA 3’-end processing to transcription termination, to promote premature termination and facultative heterochromatin formation at meiotic genes. more...

Organism:: Schizosaccharomyces pombe

Type:: Non-coding RNA profiling by high throughput sequencing

Platform:: GPL16192
2 Samples

Download data: SGR

Series

Accession:: GSE74739

ID:: 200074739

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Select item 20003863614.

Argonaute and Trimmer generate Dicer-independent priRNAs and nucleate RNAi

(Submitter supplied) RNA interference is involved in silencing of transposable and repetitive elements. How these elements are initially recognized by RNAi is a fundamental and unanswered question. We previously identified a class of Dicer-independent small RNAs, called primal small RNAs (priRNAs), in fission yeast. The mechanism by which Dicer-independent small RNAs are generated is not clear for any species. Here we reconstitute priRNA biogenesis in vitro and demonstrate that priRNAs can nucleate RNAi in vivo. more...

Organism:: Schizosaccharomyces pombe

Type:: Non-coding RNA profiling by high throughput sequencing

Platform:: GPL9453
13 Samples

Download data: TXT

Series

Accession:: GSE38636

ID:: 200038636

PubMed Similar studies SRA Run Selector

Select item 20009774915.

The Conserved RNA Binding Cyclophilin, Rct1, Regulates Small RNA Biogenesis and Splicing Independent of Heterochromatin Assembly

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

Organism:: Schizosaccharomyces pombe

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Non-coding RNA profiling by high throughput sequencing

Platforms:: GPL16192 GPL13988
67 Samples

Download data: BW

Series

Accession:: GSE97749

ID:: 200097749

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Select item 20009774816.

The Conserved RNA Binding Cyclophilin, Rct1, Regulates Small RNA Biogenesis and Splicing Independent of Heterochromatin Assembly [small RNA]

(Submitter supplied) RNAi factors and their catalytic activities are essential for heterochromatin assembly in S. pombe. This has led to the idea that siRNAs can promote H3K9 methylation by recruiting the Cryptic Loci Regulator Complex (CLRC), also known as Recombination In K Complex (RIKC), to the nucleation site. The conserved RNA-binding protein Rct1 (AtCyp59/SIG-7) interacts with splicing factors and with RNA polymerase II. more...

Organism:: Schizosaccharomyces pombe

Type:: Non-coding RNA profiling by high throughput sequencing

Platform:: GPL16192
17 Samples

Download data: BW

Series

Accession:: GSE97748

ID:: 200097748

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20009774717.

The Conserved RNA Binding Cyclophilin, Rct1, Regulates Small RNA Biogenesis and Splicing Independent of Heterochromatin Assembly [RNA-seq]

(Submitter supplied) RNAi factors and their catalytic activities are essential for heterochromatin assembly in S. pombe. This has led to the idea that siRNAs can promote H3K9 methylation by recruiting the Cryptic Loci Regulator Complex (CLRC), also known as Recombination In K Complex (RIKC), to the nucleation site. The conserved RNA-binding protein Rct1 (AtCyp59/SIG-7) interacts with splicing factors and with RNA polymerase II. more...

Organism:: Schizosaccharomyces pombe

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13988
12 Samples

Download data: BW

Series

Accession:: GSE97747

ID:: 200097747

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20009774618.

The Conserved RNA Binding Cyclophilin, Rct1, Regulates Small RNA Biogenesis and Splicing Independent of Heterochromatin Assembly [ChIP-seq]

(Submitter supplied) RNAi factors and their catalytic activities are essential for heterochromatin assembly in S. pombe. This has led to the idea that siRNAs can promote H3K9 methylation by recruiting the Cryptic Loci Regulator Complex (CLRC), also known as Recombination In K Complex (RIKC), to the nucleation site. The conserved RNA-binding protein Rct1 (AtCyp59/SIG-7) interacts with splicing factors and with RNA polymerase II. more...

Organism:: Schizosaccharomyces pombe

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

Platform:: GPL13988
38 Samples

Download data: BW

Series

Accession:: GSE97746

ID:: 200097746

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20001727119.

Histone H2A.Z cooperates with RNAi and heterochromatin factors to suppress antisense RNAs

(Submitter supplied) Expression profile of mutant cells compared to wild-type cells: Expression profile of Schizosaccharomyces pombe genome in ∆pht1, ∆ago1, ∆clr4, rik1, ∆pht1rik1, ∆pht1∆ago1 and ∆pht1∆clr4 cells. Expression profile of Schizosaccharomyces pombe genome in ∆rrp6, ∆cid14, ∆swi6, ∆swr1, ∆set1, ∆pht1∆swi6 and ∆pht1∆set1 cells. Expression profile of Schizosaccharomyces pombe genome in ∆alp13, ∆cph1, ∆set2, clr6-1 and ∆cph1∆pht1 cells. more...