GEO DataSets

(Submitter supplied) Epigenetic gene silencing plays a critical role in regulating gene expression and contributes to organismal development and cell fate acquisition in eukaryotes. In fission yeast, Schizosaccharomyces pombe, heterochromatin-associated gene silencing is known to be mediated by RNA processing pathways including RNA interference (RNAi) and a 3’-5’ exoribonuclease complex exosome. Here, we report a new RNA-processing pathway that contributes to epigenetic gene silencing and assembly of heterochromatin mediated by 5’-3’ exoribonuclease Dhp1/Xrn2. more...

Organism:

Schizosaccharomyces pombe

Type:

Expression profiling by array

Platform:

GPL19654

3 Samples

Download data: BEDGRAPH, TXT

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

Organism:

Schizosaccharomyces pombe

Type:

Expression profiling by array; Other

Platforms:

GPL19654 GPL13988

8 Samples

Download data: BEDGRAPH, BIGWIG, TXT

(Submitter supplied) Epigenetic gene silencing plays a critical role in regulating gene expression and contributes to organismal development and cell fate acquisition in eukaryotes. In fission yeast, Schizosaccharomyces pombe, heterochromatin-associated gene silencing is known to be mediated by RNA processing pathways including RNA interference (RNAi) and a 3’-5’ exoribonuclease complex exosome. Here, we report a new RNA-processing pathway that contributes to epigenetic gene silencing and assembly of heterochromatin mediated by 5’-3’ exoribonuclease Dhp1/Xrn2. more...

Organism:

Schizosaccharomyces pombe

Type:

Other

Platform:

GPL13988

5 Samples

Download data: BIGWIG

(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

(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

(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

(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

Platforms:

GPL20584 GPL16192

23 Samples

Download data: BEDGRAPH, BW, TXT

(Submitter supplied) RNA sequencing in Schizosaccharomyces pombe

Organism:

Schizosaccharomyces pombe

Type:

Expression profiling by high throughput sequencing

Platform:

GPL20584

4 Samples

Download data: TXT

(Submitter supplied) Mapping of H3K9me2, 3' RNA processing and termination factors, and terminating RNA polymerase II in Schizosaccharomyces pombe

Organism:

Schizosaccharomyces pombe

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL20584 GPL16192

19 Samples

Download data: BEDGRAPH, BW

(Submitter supplied) Centromeres exert vital cellular functions in mitosis and meiosis. A specialized histone and other chromatin-bound factors nucleate a dynamic protein assembly that is required for the proper segregation of sister chromatids. In several organisms including the fission yeast S. pombe, a RNAi-related pathway further strengthens the epigenetic maintenance of centromere location, primarily through repressing transcription near centromeres. more...

Organism:

Schizosaccharomyces pombe

Type:

Expression profiling by array

Platform:

GPL4550

2 Samples

Download data: XLS

(Submitter supplied) Long non-coding RNAs (lncRNAs) play a conserved role in regulating gene expression, chromatin dynamics and cell differentiation. They serve as a platform for RNA interference (RNAi)-mediated heterochromatin formation or DNA methylation in many eukaryotic organisms. We found in Schizosaccharomyces pombe, that heterochromatin is lost at transcribed regions in absence of RNA degradation, although establishment is not affected. more...

Organism:

Schizosaccharomyces pombe

Type:

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

Platforms:

GPL9453 GPL22681

70 Samples

Download data: TDF

(Submitter supplied) Aconitase is a highly conserved metabolic enzyme for TCA cycle. In Schizosaccharomyces pombe, an aconitase (Aco2) is localized in both mitochondria and the nucleus, apart from an exclusively mitochondrial one (Aco1). We investigated the role of nuclear Aco2, and present evidences that it interacts with Chp1, a heterochromatin-associated HP1 protein, and acts as an anti-silencing factor. Nuclear depletion of Aco2 by deleting nuclear localization signal (aco2ΔNLS) suppressed the gene-silencing defects of RNAi mutants Δago1 and Δdcr1 at the centromere, where RNAi-mediated heterochromatin formation prevails. more...

Organism:

Schizosaccharomyces pombe

Type:

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

Platform:

GPL17225

15 Samples

Download data: BW, TXT

(Submitter supplied) The highly conserved multienzyme Rix1-containing complex (hereafter referred to as the rixosome), is required for ribosomal RNA (rRNA) processing and also localizes to heterochromatin in fission yeast, but its role in heterochromatin formation is unknown. Here we report the isolation of separation of function mutations in subunits of the rixosome that abolish its physical association with Swi6/HP1 and localization to heterochromatin, but do not affect growth or rRNA processing. more...

Organism:

Schizosaccharomyces pombe

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL17225 GPL20584

38 Samples

Download data: BW

(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

(Submitter supplied) ccp1Δ, gar2Δ showed wild-type level of genome-wide Cnp1 distribution.

Organism:

Schizosaccharomyces pombe

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL22668

6 Samples

Download data: BEDGRAPH

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

Organism:

Schizosaccharomyces pombe

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL22668

21 Samples

Download data: BEDGRAPH

(Submitter supplied) In our genetic screen, we found that Ccp1 is an epigenetic stability modulator in centromeres and heterochromatin in S. pombe. In interphase cells,Ccp1-GFP enriched at centromeres. To determine the association sites of Ccp1 with the centromeres and to characterize the global distribution pattern of Ccp1 throughout the genome, ChIP-seq were performed for Myc-tagged Ccp1 (C-terminal fusion protein). The result revealed that Ccp1 associates with the central core regions (cnt and imr) within every single centromere.

Organism:

Schizosaccharomyces pombe

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL22668

4 Samples

Download data: BEDGRAPH

(Submitter supplied) ccp1Δ affects the genome-wide distribution of H3K9me2.

Organism:

Schizosaccharomyces pombe

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL22668

11 Samples

Download data: BEDGRAPH

(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

(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