GEO DataSets

(Submitter supplied) H3K9 methylation (H3K9me) marks transcriptionally silent genomic regions called heterochromatin. A conserved class of HP1 proteins are critically required to establish and maintain heterochromatin. HP1 proteins bind to H3K9me, recruit factors that promote heterochromatin formation, and oligomerize to form phase-separated condensates. We do not understand how HP1 protein binding to heterochromatin establishes and maintains transcriptional silencing. more...

Organism:

Schizosaccharomyces pombe

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28961

31 Samples

Download data: XLSX

(Submitter supplied) Cohesin is a highly conserved, multiprotein complex whose canonical function is to hold sister chromatids together to ensure accurate chromosome segregation. Cohesin association with chromatin relies on the separate Scc2-Scc4 complex that enables cohesin ring opening and topological entrapment of sister DNAs. Cohesin loading at centromeres also requires the CTF19 kinetochore subcomplex that recruits Scc2-Scc4, ensuring efficient and targeted cohesin binding. more...

Organism:

Saccharomyces cerevisiae; Schizosaccharomyces pombe

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL29170

4 Samples

Download data: BW

(Submitter supplied) H3K9 methylation (H3K9me) marks transcriptionally silent genomic regions called heterochromatin. A conserved class of HP1 proteins are critically required to establish and maintain heterochromatin. HP1 proteins bind to H3K9me, recruit factors that promote heterochromatin formation, and oligomerize to form phase-separated condensates. We do not understand how HP1 protein binding to heterochromatin establishes and maintains transcriptional silencing. more...

Organism:

Schizosaccharomyces pombe

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL20584

24 Samples

Download data: BW, FA, FASTA, GFF, GFF3

(Submitter supplied) Transcription by RNA polymerase I (RNAPI) represents the majority of the transcriptional activity in eukaryotic cells and is associated with the production of mature ribosomal rRNAs (rRNAs). As several rRNA maturation steps are coupled to RNAPI transcription, the rate of RNAPI elongation directly influences processing of nascent rRNA, and changes in RNAPI transcription rate can result in alternative rRNA processing pathways in response to growth conditions and stress. more...

Organism:

Schizosaccharomyces pombe

Type:

Other

Platform:

GPL17225

6 Samples

Download data: BW

(Submitter supplied) Cellular quiescence is an important physiological state both in unicellular and multicellular eukaryotes. Quiescent cells are halted for proliferation and stop the cell cycle at the G0 stage. Using fission yeast as a model organism, we have previously found that several subunits of a conserved chromatin remodeling complex, Ino80C (INOsitol requiring nucleosome remodeling factor), are required for survival in quiescence. more...

Organism:

Schizosaccharomyces pombe

Type:

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

Platform:

GPL30658

97 Samples

Download data: BIGWIG, TXT

(Submitter supplied) This RNA-Seq analysis compares gene expression of the Duf89 null mutant (duf89∆) contrasting to the WT in the fission yeast S. pombe

Organism:

Schizosaccharomyces pombe

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL22682 GPL28961

6 Samples

Download data: XLSX

(Submitter supplied) In vivo metabolic labelling of S. pombe RNA to measure transcriptome-wide mRNA half-lives

Organism:

Schizosaccharomyces pombe

Type:

Expression profiling by high throughput sequencing; Other

Platform:

GPL28961

36 Samples

Download data: TSV

(Submitter supplied) To study the TORC1-mediated transcriptional regulation of the genes involved in ribosome biosynthesis in fission yeast

Organism:

Schizosaccharomyces pombe

Type:

Expression profiling by high throughput sequencing

Platform:

GPL16192

4 Samples

Download data: XLSX

(Submitter supplied) In Saccharomyces cerevisiae, a heterochromatin-like chromatin structure called the silencing region is present at the telomere as a complex of Sir2, Sir3, and Sir4. Sir2 is a histone deacetylase, and Sir3 and Sir4 promote spreading of the silencing region at the telomere. Histone acetyltransferases restrict the silencing region. Here, we show that Spt3 and Spt8 block the spread of silencing regions. more...

Organism:

Saccharomyces cerevisiae; Schizosaccharomyces pombe

Type:

Expression profiling by array

Platform:

GPL2529

3 Samples

Download data: CEL, CHP

(Submitter supplied) In most eukaryotes and bacteria, queuosine (Q) replaces the guanosine at the wobble position of tRNAs harboring a GUN anticodon. To faithfully detect Q-modification in RNAs from Schizosaccharomyces pombe and Shigella flexneri, Q-MaP-Seq was established and applied to tRNAs from S. pombe WT (AEP1) cells and Shigella flexneri WT cells and tgt∆ cells. Q-modification of in vitro-transcribed RNAs and RNAs isolated from S. more...

Organism:

Shigella flexneri; Schizosaccharomyces pombe

Type:

Expression profiling by high throughput sequencing; Other

Platforms:

GPL16192 GPL30040

30 Samples

Download data: XLSX

(Submitter supplied) ChIP-on-ChIP experiments were performed to quantitate the genome-wide localization of heterochromatin proteins Swi6 and H3-Lys9-me2 in wild type versus polalpha mutant swi7H4, Pol delta mutant, dts2 and cut4 mutant cut4-993. Our results indicate that the localization of Swi6 and H3-Lys7-me2 at heterochromaitn regions, like centromere, telomere and mating-type is abrogated in the swi7H4, dts2 and cut4 mutants.

Organism:

Schizosaccharomyces pombe

Type:

Genome binding/occupancy profiling by genome tiling array

Platform:

GPL16383

8 Samples

Download data: TXT

(Submitter supplied) Assembly of eukaryotic ribosomes begins in the nucleolus, a compartmentalized membraneless organelle. Although the two ribosomal subunits, 40S and 60S, assemble independently, it remains unknown if these particles are physically sorted as they assemble and how they partition from the central chromatin compartment into the outer nucleolar regions, where maturation occurs. In this study, we show that nucleophosmin specifically mediates the assembly of nascent 60S subunits and that this specificity is determined by its chromatin localization at the rDNA sites encoding for 60S subunit rRNA. more...

Organism:

Schizosaccharomyces pombe

Type:

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

Platform:

GPL22681

64 Samples

Download data: TDF

(Submitter supplied) To reach an economically feasible bioethanol process from lignocellulose, efficient fermentation by yeast of all sugars present in the hydrolysate has to be achieved. However, when exposed to lignocellulosic hydrolysate, Saccharomyces cerevisiae is challenged with a variety of inhibitors that reduce yeast viability, growth and fermentation rate, and in addition damage cellular structures. In order to evaluate the yeast capability to adapt to lignocellulosic hydrolysates and to investigate the yeast molecular response to inhibitors, fed-batch cultivation of an industrial S. more...

Organism:

Schizosaccharomyces pombe; Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL2529

10 Samples

Download data: CEL, XLSX

(Submitter supplied) Ebselen is synthetic selenium containing organic compound. It exhibits glutathione peroxidase (GSH-Px) like activity hence acts as a potent antioxidant therefore has been widely used in the treatment of various diseases. In contrast, certain studies also demonstrate its toxic nature; however its mechanism of action is not well understood. Presently, Ebselen has been used at 100 µM concentration for the elucidation of its molecular and cellular mechanism of action. more...

Organism:

Schizosaccharomyces pombe; Saccharomyces cerevisiae

Type:

Expression profiling by array

Platform:

GPL2529

4 Samples

Download data: CEL

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

Organism:

Schizosaccharomyces pombe

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28961

35 Samples

Download data: XLSX

(Submitter supplied) This RNA-Seq analysis compares gene expression of fission yeast cells (Schizosaccharomyces pombe) at various times after phosphate starvation (2, 4, and 8 HR) either with 100 µg/ml cycloheximide or without drug contrasting to the cells grown in phosphate replete conditions (0HR) in the absence of the drug.

Organism:

Schizosaccharomyces pombe

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28961

21 Samples

Download data: XLSX

(Submitter supplied) This RNA-Seq analysis compares gene expression of fission yeast (Schizosaccharomyces pombe) strains prior to phosphate starvation (0 HR) and at various times after phosphate starvation (4, 8, 12, 24, 36, and 48 HR) contrasting to the WT fission yeast S. pombe cells grown in phosphate replete conditions (WT 0HR)

Organism:

Schizosaccharomyces pombe

Type:

Expression profiling by high throughput sequencing

Platform:

GPL28961

14 Samples

Download data: TXT, XLSX

(Submitter supplied) Digestion with restriction enzymes is a classical approach for probing DNA accessibility in chromatin. It allows to monitor both the cut and the uncut fraction and thereby the determination of accessibility or occupancy (= 1- accessibility) in absolute terms as the percentage of cut or uncut out of the total molecules. The here presented protocol takes this classical approach to the genome-wide level. more...

Organism:

Saccharomyces cerevisiae; Schizosaccharomyces pombe

Type:

Other

Platforms:

GPL30978 GPL30979

21 Samples

Download data: BW

(Submitter supplied) The packaging of the genetic material into chromatin imposes the remodeling of this barrier to allow efficient transcription. RNA polymerase II activity is associated with several histone modification complexes that enforce remodeling. How RNA polymerase III (Pol III) counteracts the inhibitory effect of chromatin is unknown. We report here that antisense RNA Polymerase II (Pol II) transcription is critical to prime and maintain nucleosome depletion at Pol III loci and allow efficient Pol III recruitment upon re-initiation of growth from stationary phase. more...

Organism:

Schizosaccharomyces pombe

Type:

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

Platform:

GPL17225

12 Samples

Download data: BW, TXT

(Submitter supplied) In this study we analysed the functional relevance of the interaction between Pla1 and the MTREC complex core component Red1 using various high throughput sequencing analyses performed on different Pla1-Red1 interaction mutants.Our analyses revealed that as part of MTREC complex, Pla1 hyper-adenylates Cryptic Unstable Transcripts (CUTs) for their efficient degradation. Interestingly, our H3K9(me)2 ChIP seq. more...

Organism:

Schizosaccharomyces pombe

Type:

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

Platforms:

GPL28961 GPL31123

30 Samples

Download data: BW