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MRNA expression analysis in mock and cgh-1(RNAi) animals

ABSTRACT: To determine mRNA expression levels in mock and cgh-1(RNAi) animals, RNA was purified from young adult worms, using Trizol. A total of 6 samples was analyzed (triplicates of mock and cgh-1(RNAi) animals respectively)

ORGANISM(S): Caenorhabditis elegans

SUBMITTER: Dimos Gaidatzis

PROVIDER: E-GEOD-36713 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Genome-wide analysis of GLD-1-mediated mRNA regulation suggests a role in mRNA storage.

Scheckel Claudia C Gaidatzis Dimos D Wright Jane E JE Ciosk Rafal R

PLoS genetics 20120531 5

Translational repression is often accompanied by mRNA degradation. In contrast, many mRNAs in germ cells and neurons are "stored" in the cytoplasm in a repressed but stable form. Unlike repression, the stabilization of these mRNAs is surprisingly little understood. A key player in Caenorhabditis elegans germ cell development is the STAR domain protein GLD-1. By genome-wide analysis of mRNA regulation in the germ line, we observed that GLD-1 has a widespread role in repressing translation but, im ...[more]

PMID: 22693456

Similar Datasets

GLD-1 mRNA regulation

Project description:This SuperSeries is composed of the following subset Series: GSE33081: Identification of GLD-1 target mRNAs GSE33082: mRNA expression analysis in wild-type, gld-1 and cgh-1 mutant animals GSE33083: Polysome profiling of wild-type and gld-1 mutant animals GSE36713: mRNA expression analysis in mock and cgh-1(RNAi) animals Refer to individual Series

2012-06-17 | E-GEOD-33084 | biostudies-arrayexpress

mRNA expression analysis in wild-type, gld-1 and cgh-1 mutant animals

Project description:To determine mRNA expression levels in wild-type, gld-1 (q485) mutant and cgh-1(tn691) mutant animals, RNA was purified from dissected gonads of young adult worms, using the PicoPur Kit. A total of 9 samples was analyzed (triplicates of wild-type, gld-1 mutant and cgh-1 mutant animals respectively)

2012-06-17 | E-GEOD-33082 | biostudies-arrayexpress

Identification of GLD-1 target mRNAs

Project description:To determine which mRNAs are bound by GLD-1 we performed GLD-1 and MYC (as a negative control) immunoprecipitation experiments on wildtype animals. A total of 6 samples was analyzed (triplicates of GLD-1 IPs and MYC IPs respectively)

2012-06-17 | E-GEOD-33081 | biostudies-arrayexpress

Polysome profiling of wild-type and gld-1 mutant animals

Project description:To determine the translational status of mRNAs in wild-type and gld-1 mutant animals, we analyzed total and polysomal RNA levels in both strains by tiling arrays A total of 16 samples was analyzed (quadruplicates of wild-type_total, wild-type_polysomal, gld-1_total, gld-1_polysomal RNA respectively)

2012-06-17 | E-GEOD-33083 | biostudies-arrayexpress

mRNA expression analysis in mock and cgh-1(RNAi) animals

Project description:To determine mRNA expression levels in mock and cgh-1(RNAi) animals, RNA was purified from young adult worms, using Trizol.

2012-06-18 | GSE36713 | GEO

Caenorhabditis elegans

Project description:mRNA expression analysis in mock and cgh-1(RNAi) animals

| PRJNA155455 | ENA

S2 cell expression data following DmSTING knockdown and cyclic ci-GMP transfection

Project description:S2 cells were knocked down for DmSTING by RNAi or using scrambled RNAi. Cyclic di-GMP (Biolog C057) was transfected 72h later. Mock transfection was performed using lipofectamine alone. Drosophila genome 2.0 Affymetrix arrays were used to perform gene expression analysis.

2018-06-19 | GSE90443 | GEO

Analysis of direct target genes regulated by AS1 and AS2

Project description:Analysis of tiling array data identified 358 genomic regions commonly enriched by the AS1 and T7 antibody datasets. AS1 antibody data set (AS1 antibody versus mock) and the T7 antibody data set (T7 antibody versus mock)

2013-03-06 | E-GEOD-44872 | biostudies-arrayexpress

P bodies coat germ granules to promote transgenerational gene silencing in C. elegans

Project description:Formation of biomolecular condensates have emerged as a critical mechanism for compartmentation in living cells. Despite interactions between distinct condensates have been reported, the biological relevance of such interactions remains elusive. In germ cells, small RNA silencing factors are enriched in germ granules, which distinct factors are organized into sub-compartments with specific functions linked to genome surveillance or transgenerational gene silencing. Here we showed that perinuclear germ granules are coated by P body, another condensate known for housing untranslated mRNAs and mRNA degradation factors. Disruption of P body factors, including CGH-1/DDX6 and CAR-1/LSM14, lead to dispersal of small RNA factors from perinuclear germ granules and disorganization of sub-compartments within germ granules. We further showed that CAR-1 promote the interactions between CGH-1 with germ granule factors and such interactions are critical for CGH-1’s ability to promote piRNA-mediated gene silencing. Importantly, we observed that cgh-1 mutants are competent in triggering gene silencing but exhibit defects in maintaining gene silencing effects in the subsequent generations. Small RNA sequencing further showed that cgh-1 mutants exhibit defects in amplifying secondary small RNAs, a known carrier of gene silencing memory. Together, our results uncover the function of P body factors in small RNA-mediated transgenerational gene silencing and highlight how the formation and function of one condensate can be regulated by an adjacent, interacting condensate in cells.

2023-06-16 | PXD037342 | Pride

aCGH in paired blood/tumor samples in Wilms Tumors

Project description:Array CGH analysis of paired blood and tumor DNA samples from 14 patients with sporadic Wilms tumor. Previously array CGH studies in WT have only been performed in tumor tissue samples. We herein describe a novel set of constitutional abnormalities and point to candidate genes that might be associated with WT development. 28 paired DNA samples of peripheral blood/fresh tumor tissue from 14 patients (10 males, 4 females) with histologically confirmed WT. All tumor samples were collected from primary tumors from patients treated with the same neoadjuvant chemotherapy following the International Society of Paediatric Oncology (SIOP) WT 2001 trial protocol.

2015-06-19 | E-GEOD-69971 | biostudies-arrayexpress

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