txid6239[orgn] AND "strain N2 wild type"[All Fields] - GEO DataSets

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Select item 2002392911.

Germ granule association drives small RNA specificity for a nuclear Argonaute protein

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

Organism:: Caenorhabditis elegans

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

Platforms:: GPL19757 GPL32326
57 Samples

Download data: TXT

Series

Accession:: GSE239291

ID:: 200239291

Select item 2002392862.

Germ granule association drives small RNA specificity for a nuclear Argonaute protein [mRNA-seq]

(Submitter supplied) RNA interference (RNAi) is a conserved gene silencing process that exists in diverse organisms to protect genome integrity and regulate gene expression. In C. elegans, majority of RNAi components are located in phase-separated perinuclear germ granules, including P granule, Mutator foci, Z granule, and SIMR foci. However, the protein components and function of the newly discovered SIMR foci are unknown. more...

Organism:: Caenorhabditis elegans

Type:: Expression profiling by high throughput sequencing

Platform:: GPL32326
9 Samples

Download data: TXT

Series

Accession:: GSE239286

ID:: 200239286

Select item 2002392853.

Germ granule association drives small RNA specificity for a nuclear Argonaute protein [CUT&Tag]

Organism:: Caenorhabditis elegans

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

Platform:: GPL32326
12 Samples

Download data: TXT

Series

Accession:: GSE239285

ID:: 200239285

Select item 2001998074.

Expression data from mid-aged decapping mutant C. elegans nematodes

(Submitter supplied) Removal of the 5’ cap of mRNAs (decapping) is mainly catalyzed by a conserved holoenzyme, composed of the catalytic subunit DCP2 and its essential cofactor DCP1. Studies in C. elegans have shown that ageing is characterized by the accumulation of decapping factors in P-Bodies, and loss of DCAP-1/DCP1 or DCAP-2/DCP2 significantly shortens lifespan. However, the relationship between mRNA decapping and ageing remains elusive. more...

Organism:: Caenorhabditis elegans

Type:: Expression profiling by array

Platform:: GPL32098
6 Samples

Download data: CEL

Series

Accession:: GSE199807

ID:: 200199807

Analyze with GEO2R

Select item 2001518285.

Arginine methylation promotes siRNA-binding specificity for a spermatogenesis-specific isoform of the Argonaute protein CSR-1

(Submitter supplied) CSR-1 is an essential Argonaute protein that binds to a subclass of 22G-RNAs targeting most germline-expressed genes. Here we show that the two isoforms of CSR-1 have distinct expression patterns; CSR-1B is ubiquitously expressed throughout the germline and during all stages of development while CSR-1A expression is restricted to germ cells undergoing spermatogenesis. Furthermore, CSR-1A associates preferentially with 22G-RNAs mapping to spermatogenesis-specific genes whereas CSR-1B-bound small RNAs map predominantly to oogenesis-specific genes. more...

Organism:: Caenorhabditis elegans

Type:: Expression profiling by high throughput sequencing; Other

Platforms:: GPL13657 GPL19757
60 Samples

Download data: TXT

Series

Accession:: GSE151828

ID:: 200151828

SRA Run Selector

Select item 2001560376.

Atf-6 regulates lifespan through ER-mitochondrial calcium homeostasis

(Submitter supplied) Functional crosstalk between organelles is critical for maintaining cellular homeostasis. Individually, dysfunction of both endoplasmic reticulum (ER) and mitochondria have been linked to cellular and organismal aging, but little is known about how mechanisms of inter-organelle communication might be targeted to extended longevity. The metazoan unfolded protein response (UPR) maintains ER health through a variety of mechanisms beyond its canonical role in proteostasis, including calcium storage and lipid metabolism. more...

Organism:: Caenorhabditis elegans

Type:: Expression profiling by high throughput sequencing

Platform:: GPL19757
8 Samples

Download data: CSV, TXT

Series

Accession:: GSE156037

ID:: 200156037

SRA Run Selector

Select item 2001382207.

A Tudor-domain containing protein, SIMR-1, mediates silencing of piRNA target mRNAs by the Mutator Complex

(Submitter supplied) piRNAs play a critical role in the regulation of transposons and other germline genes. In Caenorhabditis elegans, silencing of piRNA target genes is mediated by the Mutator complex, which synthesizes high levels of siRNAs through the activity of an RNA-dependent RNA polymerase. However, how mRNAs recognized by the piRNA pathway are handed off to the Mutator pathway is unclear. Here, we identify the Tudor domain-containing protein, SIMR-1, as a key mediator of this handoff. more...

Organism:: Caenorhabditis elegans

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

Platform:: GPL19757
64 Samples

Download data: TXT

Series

Accession:: GSE138220

ID:: 200138220

SRA Run Selector

Select item 2001345738.

RNAi pathways repress reprogramming of C. elegans germ cells during heat stress

(Submitter supplied) Repression of cellular reprogramming in germ cells is critical to maintaining cell fate and fertility. When germ cells mis-express somatic genes they can be directly converted into other cell types, resulting in loss of totipotency and reproductive potential. Here we show that RNAi pathways play a key role in maintaining germline gene expression and totipotency after heat stress. By examining transcriptional changes that occur in mut-16 mutants, that lack a key protein in the RNAi pathway, at elevated temperatures we found that soma-specific genes are mis-expressed in germ cells. more...

Organism:: Caenorhabditis elegans

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

Platform:: GPL19757
36 Samples

Download data: BEDGRAPH, TXT

Series

Accession:: GSE134573

ID:: 200134573

SRA Run Selector

Select item 2001209499.

Heat Shock in C. elegans Induces Downstream of Gene Transcription and Accumulation of Double-Stranded RNA

(Submitter supplied) We observed that heat shock of Caenorhabditis elegans leads to the formation of nuclear double-stranded RNA (dsRNA) foci, detectable with a dsRNA-specific monoclonal antibody. These foci significantly overlap with nuclear HSF-1 granules. To investigate the molecular mechanism(s) underlying dsRNA foci formation, we used RNA-seq to globally characterize total RNA and immunoprecipitated dsRNA from control and heat-shocked worms. more...

Organism:: Caenorhabditis elegans

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13657
11 Samples

Download data: TXT

Series

Accession:: GSE120949

ID:: 200120949

SRA Run Selector

Select item 20009777510.

Two distinct transcription termination modes dictated by promoters

(Submitter supplied) Transcription termination determines the ends of transcriptional units and thereby ensures integrity of gene regulation. Here we perform genome-wide investigation of RNA polymerase II (Pol II) transcription termination in Caenorhabditis elegans and observe two distinct modes of termination. Whereas a subset of genes requires the exoribonuclease XRN2, a known termination factor, termination of other genes appears independent of, and refractory to, XRN2. more...

Organism:: Caenorhabditis elegans

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

Platform:: GPL18245
51 Samples

Download data: BW, TAB

Series

Accession:: GSE97775

ID:: 200097775

SRA Run Selector

Select item 20008388711.

Glucose or Altered Ceramide Biosynthesis Mediate Oxygen Deprivation Sensitivity Through Novel Pathways Revealed by Transcriptome Analysis in Caenorhabditis elegans

(Submitter supplied) RNA-Seq analysis was performed to assess how a glucose-supplemented diet and/or a hyl-2 mutation altered the transcriptome. Comparison analysis of transcripts associated with anoxia sensitive animals (hyl-2(tm2331) mutation or a glucose diet) revealed 199 common transcripts encoded by genes with known or predicted functions involving innate immunity, cuticle function (collagens) or xenobiotic and endobiotic phase I and II detoxification system.

Organism:: Caenorhabditis elegans

Type:: Expression profiling by high throughput sequencing

Platform:: GPL13657
12 Samples

Download data: DIFF

Series

Accession:: GSE83887

ID:: 200083887

SRA Run Selector

Select item 20007177112.

Expression Data from International C. elegans Experiment 1st (Agilent)

(Submitter supplied) The effect of microgravity on gene expression in C.elegans was comprehensively analysed by DNA microarray (Agilent).

Organism:: Caenorhabditis elegans

Type:: Expression profiling by array

Platform:: GPL11346
6 Samples

Download data: TXT

Series

Accession:: GSE71771

ID:: 200071771

Analyze with GEO2R

Select item 20007177013.

Microgravity effect on C. elegans N2/VC (CERISE, 4 days)

(Submitter supplied) Microgravity effect on C. elegans gene expression was analysed by whole genome microarray. The worms were cultivated under microgravity for 4 days in the Japanese Module of the International Space Station.

Organism:: Caenorhabditis elegans

Type:: Expression profiling by array

Platform:: GPL11346
9 Samples

Download data: TXT

Series

Accession:: GSE71770

ID:: 200071770

Analyze with GEO2R

Select item 20002622814.

C. elegans pdf-1 gene knockout effect

(Submitter supplied) This study aims to quantify the effect of pdf-1 gene knockout in the nematode Caenorhabditis elegans at the RNA level. Gene expression of pdf-1 (lsc27) mutant animals is compared to wild type gene (N2) expression. RNA levels of all differentially expressed genes have been verified by means of qPCR on idependent samples.

Organism:: Caenorhabditis elegans

Type:: Expression profiling by array

Platform:: GPL11346
4 Samples

Download data: TXT

Series

Accession:: GSE26228

ID:: 200026228

Analyze with GEO2R

Select item 20004281915.

The landscape of RNA polymerase II transcription initiation in C. elegans reveals a novel regulatory architecture

(Submitter supplied) It has recently been shown that RNA Polymerase II transcription is far more extensive than previously thought, much of it not associated with protein-coding genes. To investigate this phenomenon, we determined the genome-wide landscape of RNA Polymerase II transcription initiation and elongation in C. elegans. We identify 73,500 distinct clusters of transcription initiation and find that initiation is often bidirectional. more...

Organism:: Caenorhabditis elegans

Type:: Expression profiling by high throughput sequencing; Other

Platforms:: GPL13776 GPL13657
5 Samples

Download data: BB, BW

Series

Accession:: GSE42819

ID:: 200042819

SRA Run Selector

Select item 20002733816.

Microgravity effect on C. elegans N2/VC (CERISE, 8days)

(Submitter supplied) Microgravity effect on C. elegans gene expression was analysed by whole genome microarray. The worms were cultivated under microgravity for 8days in the Japanese Module of the International Space Station.

Organism:: Caenorhabditis elegans

Type:: Expression profiling by array

Platform:: GPL11346
18 Samples

Download data: TXT

Series

Accession:: GSE27338

ID:: 200027338

Analyze with GEO2R

Select item 20002451017.

Deep sequencing of small RNAs from C. elegans during aging

(Submitter supplied) Aging is under genetic control in C. elegans but the mechanisms of lifespan regulation are not completely known. MicroRNAs (miRNAs) regulate various aspects of development and metabolism and one miRNA has been previously implicated in lifespan. Here we show that multiple miRNAs change expression in C. elegans aging, including novel miRNAs, and that mutations in several of the most up-regulated miRNAs lead to lifespan defects. more...