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Items: 1 to 20 of 126

1.

Accumulation of RNA on chromatin disrupts heterochromatic silencing

(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
Series
Accession:
GSE94129
ID:
200094129
2.

The CENP-B fission yeast homolog, ABP1, is involved in the repression of cryptic transcription from the Tf2 and rRNA genes repeat

(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 high throughput sequencing
Platforms:
GPL15167 GPL9453 GPL13988
10 Samples
Download data: BED
Series
Accession:
GSE81326
ID:
200081326
3.

The CENP-B fission yeast homolog, ABP1, is involved in the repression of cryptic transcription from the Tf2 and rRNA genes repeat [smallRNA-Seq]

(Submitter supplied) In Schizosaccharomyces pombe, Abp1 is homologous to mammalian CENP-B. Abp1 has various seemingly independent functions in the yeast nucleus. It binds to pericentromeric repeats and contribute to heterochromatin formation (ref). Abp1 is involved in regulating the directionality of mating-type switching by regulating the transcription of a member of the recombination-promoting complex (refs). Abp1 also preserves genome integrity by silencing the Tf2 retrotransposons and protecting replication forks during pausing (ref). more...
Organism:
Schizosaccharomyces pombe
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL9453
4 Samples
Download data: BED
Series
Accession:
GSE81280
ID:
200081280
4.

Interaction between TBP and condensing drives the organization and faithful segregation of mitotic chromosomes

(Submitter supplied) Genome/chromosome organization is highly ordered and controls nuclear events. Here, we show that the TATA box-binding protein (TBP) interacts with the Cnd2 kleisin subunit of condensin to mediate interphase and mitotic chromosome organization in fission yeast. TBP recruits condensin onto RNA polymerase III-transcribed (Pol III) genes and highly transcribed Pol II genes; condensin in turn associates these genes with centromeres. more...
Organism:
Schizosaccharomyces pombe
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL9453 GPL13988
13 Samples
Download data: WIG
Series
Accession:
GSE60273
ID:
200060273
5.

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
6.

Poly(A)-tail profiling reveals an embryonic switch in translational control

(Submitter supplied) Poly(A) tails enhance the stability and translation of most eukaryotic messenger RNAs, but difficulties in globally measuring poly(A)-tail lengths have impeded greater understanding of poly(A)-tail function. Here we describe poly(A)-tail length profiling by sequencing (PAL-seq) and apply it to measure tail lengths of millions of individual RNAs isolated from yeasts, cell lines, Arabidopsis thaliana leaves, mouse liver, and zebrafish and frog embryos. more...
Organism:
Homo sapiens; Arabidopsis thaliana; Drosophila melanogaster; Xenopus laevis; Mus musculus; Saccharomyces cerevisiae; Schizosaccharomyces pombe; Danio rerio
Type:
Expression profiling by high throughput sequencing
13 related Platforms
64 Samples
Download data: TXT
Series
Accession:
GSE52809
ID:
200052809
7.

The unfolded protein response in fission yeast modulates stability of select mRNAs to maintain protein homeostasis

(Submitter supplied) Homeostatic control mechanisms are essentil to life. One such mechanism, the unfolded protein response (UPR) operates in all eukarytic cells to adjust protein folding capacity of the endoplasmic reticulum (ER) according to need. UPR induction in all eurkarytic cells to date involves Ire1 (kinase/endonuclease transmembrane protein) mediated a non-convential splicing of Hac1/XBP1 mRNA, encoding for a potent transcription factor. more...
Organism:
Schizosaccharomyces pombe
Type:
Expression profiling by high throughput sequencing
Platforms:
GPL13988 GPL9453
15 Samples
Download data: WIG
Series
Accession:
GSE40298
ID:
200040298
8.

Strand-specific ChIP-seq profiling of Rad52 localization

(Submitter supplied) We report the development of a novel strand-specific ChIP-seq strategy and application of this strategy in studying genome instability events
Organism:
Schizosaccharomyces pombe
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9453
66 Samples
Download data: BED
Series
Accession:
GSE39166
ID:
200039166
9.

Chromatin architectures at fission yeast transcriptional promoters and replication origins

(Submitter supplied) We have used micrococcal nuclease (MNase) digestion followed by deep sequencing in order to obtain a higher-resolution map than previously available of nucleosome positions in the fission yeast, Schizosaccharomyces pombe. Our data confirm an unusually short average nucleosome repeat length, ~152 bp, in fission yeast and that transcriptional start sites (TSSs) are associated with nucleosome-depleted regions (NDRs), ordered nucleosome arrays downstream and less regularly spaced upstream nucleosomes. more...
Organism:
Schizosaccharomyces pombe
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL9453
4 Samples
Download data: BOWTIE
Series
Accession:
GSE28071
ID:
200028071
10.

An Extended dsRBD with a Novel Zinc-Binding Motif Mediates Nuclear Retention of Fission Yeast Dicer

(Submitter supplied) Dicer proteins function in RNA interference (RNAi) pathways by generating small RNAs (sRNAs). Here we report the solution structure of the C-terminal domain of Schizosaccharomyces pombe Dicer (Dcr1). The structure reveals an unusual double-stranded RNA binding domain (dsRBD) fold embedding a novel zinc-binding motif that is conserved among dicers in yeast. Although the C-terminal domain of Dcr1 still binds nucleic acids, this property is dispensable for proper functioning of Dcr1. more...
Organism:
Schizosaccharomyces pombe
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL9453
4 Samples
Download data
Series
Accession:
GSE30549
ID:
200030549
11.

Nuclear retention of fission yeast dicer is a prerequisite for RNAi-mediated heterochromatin assembly

(Submitter supplied) RNAseIII ribonucleases act at the heart of RNA silencing pathways by processing precursor RNAs into mature microRNAs and siRNAs. In the fission yeast Schizosaccharomyces pombe, siRNAs are generated by the RNAseIII enzyme Dcr1 and are required for heterochromatin formation. In this study, we have analyzed the subcellular localization of Dcr1 and found that it accumulates in the nucleus and is enriched at the nuclear periphery. more...
Organism:
Schizosaccharomyces pombe
Type:
Non-coding RNA profiling by high throughput sequencing
Platform:
GPL9453
3 Samples
Download data: TAB
Series
Accession:
GSE18582
ID:
200018582
12.

Hairpin RNA induces secondary small interfering RNA synthesis and silencing in trans in fission yeast

(Submitter supplied) We provide evidence of the generation of Rdp1-mediated secondary siRNAs in vivo in fission yeast. Secondly, we show that the presence of Ago1-associated siRNAs does not guarantee robust silencing.
Organism:
Schizosaccharomyces pombe
Type:
Non-coding RNA profiling by high throughput sequencing
Platforms:
GPL9854 GPL9453
3 Samples
Download data: BEDGRAPH, FNA, GFF
Series
Accession:
GSE20330
ID:
200020330
13.

Illumina Genome Analyzer II (Schizosaccharomyces pombe)

Organism:
Schizosaccharomyces pombe
12 Series
113 Samples
Download data
Platform
Accession:
GPL9453
ID:
100009453
14.

siRNA_mlo3Δ

Organism:
Schizosaccharomyces pombe
Source name:
mlo3Δ
Platform:
GPL9453
Series:
GSE94129
Download data: TDF
Sample
Accession:
GSM2470623
ID:
302470623
15.

siRNA_exo2Δ

Organism:
Schizosaccharomyces pombe
Source name:
exo2Δ
Platform:
GPL9453
Series:
GSE94129
Download data: TDF
Sample
Accession:
GSM2470622
ID:
302470622
16.

siRNA_caf1Δdcr1Δ

Organism:
Schizosaccharomyces pombe
Source name:
caf1Δdcr1Δ
Platform:
GPL9453
Series:
GSE94129
Download data: TDF
Sample
Accession:
GSM2470617
ID:
302470617
17.

siRNA_caf1Δ

Organism:
Schizosaccharomyces pombe
Source name:
caf1Δ
Platform:
GPL9453
Series:
GSE94129
Download data: TDF
Sample
Accession:
GSM2470616
ID:
302470616
18.

siRNA_wild_type

Organism:
Schizosaccharomyces pombe
Source name:
wild type
Platform:
GPL9453
Series:
GSE94129
Download data: TDF
Sample
Accession:
GSM2470615
ID:
302470615
19.

RNASeq WT 2

Organism:
Schizosaccharomyces pombe
Source name:
WT
Platform:
GPL9453
Series:
GSE81280 GSE81326
Download data
Sample
Accession:
GSM2149078
ID:
302149078
20.

RNASeq ABP1d 2

Organism:
Schizosaccharomyces pombe
Source name:
ABPd
Platform:
GPL9453
Series:
GSE81280 GSE81326
Download data
Sample
Accession:
GSM2149077
ID:
302149077
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