Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptomic response of young adult N2, xpa1, and glp1 nematodes 3h after exposure to 50 J/m2 UVC radiation at 25°C

ABSTRACT: We compared the transcriptomic response to UVC radiation in widltype (N2), DNA repair-deficient (xpa-1), and germ cell-deficient (glp-1) young adult nematodes. We were interested in the wildtype response to this stressor, and postulated that the early (3h post-exposure) difference might be different in nucleotide excision repair-deficient (xpa-1) nematodes. We also hypothesized that the response would be different in young adults composed entirely of somatic cells (glp-1 strain at this temperature), compared to germ cell-bearing and gravid young adults (N2 and xpa-1). Finally, we compared constitutive differences in gene expression between the strains.

ORGANISM(S): Caenorhabditis elegans

PROVIDER: GSE15159 | GEO | 2009/10/19

SECONDARY ACCESSION(S): PRJNA114931

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Similar Datasets

Gene expression in germ line

Project description:Identification of genes expressed in the germ line of C. elegans. This SuperSeries is composed of the following subsets: Direct comparison of fem-3(gf) vs fem-1(lf): GSE725: oocytes vs sperm Indirect comparisons between males and hermaphrodites with and without a germline: GSE715: glp-4 adults GSE716: glp-4 L2 GSE717: glp-4 L3 GSE718: glp-4 L4 GSE719: wt L2 GSE720: wt L3 GSE721: wt L4 GSE722: wt adults GSE723: adult males vs reference GSE724: no germline males vs reference Temporal analysis of wild-type larval and adult gene expression: GSE726: TP01 mid-L3 GSE727: TP02 late-L3 GSE728: TP03 late L3/early L4 GSE729: TP04 early L4 GSE730: TP05 late L4 GSE731: TP06 late L4/young adult GSE732: TP07 early young adult GSE733: TP08 late young adult GSE734: TP09 adult GSE735: TP10 adult with embs 1 GSE736: TP11 adult with emb 2 GSE737: TP12 adult with emb 3 Keywords: SuperSeries Refer to individual Series

2010-05-27 | E-GEOD-696 | biostudies-arrayexpress

Transcription profiling of C. elegans treated with UV-C radiation

Project description:We used gene expression profiling to address several specific questions that arose in a study of repair of ultraviolet C radiation in C elegans, as well as to generate hypotheses regarding the possible mechanism(s) of decreased DNA repair observed in old adults in that study. This analysis was performed in order to analyze gene expression in the strain (JK1107) and experimental conditions that we used for our DNA repair studies. The supplementary file GSE4766_Resolver_all_data.txt includes Resolver generated fold-changes and p values based on ratios built in Rosetta Resolver as described in the Rosetta Biosoftware Technical Note (Lee Weng, 2004), Data processing and analysis methods in the Rosetta Resolver system (http://www.rosettabio.com/tech/default.htm). Experiment Overall Design: Gene expression data for glp-1 (strain JK1107) nematodes were obtained by comparing mRNA expression level in replicate pools of 2000-3000 mixed-stage embryos, young (1-day) adults, and old (6-day) adults raised at 25ÂºC. Three replicate pools of embryo and young adult samples were analyzed, but only two replicate pools of 6-day adults were analyzed due to low RNA recovery.

2008-06-13 | E-GEOD-4766 | biostudies-arrayexpress

Comparative Transcriptomics of heads and tails between Steinernema carpocapsae and Caenorhabditis elegans

Project description:we used short-reads to perform a comparative analysis S. carpocapsae ALL strain IJs and young adults and C.elegans dauer strain N2 and young adult strain him-8.

2020-08-18 | GSE156356 | GEO

Correlations between LC-MS/MS-detected Glycomics and NMR-detected Metabolomics in Caenorhabditis (part-II) elegans Development.

Project description:This study examines the relationship between glycans, metabolites, and development in C. elegans. Samples of N2 animals were synchronized and grown to five different time points that ranged from L1 to a mixed population of adults, gravid adults, and offspring.

2019-05-14 | ST001183 | MetabolomicsWorkbench

Correlations between LC-MS/MS-detected Glycomics and NMR-detected Metabolomics in Caenorhabditis (part -I) elegans Development.

2019-05-14 | ST001182 | MetabolomicsWorkbench

pathogen_Pluminscens_25dC_24hr_exposure_post-adulthood_N2_tiling_array

Project description:modENCODE_submission_486 This submission comes from a modENCODE project of Robert Waterston. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: Our experiments are designed to detect all C. elegans transcripts by hybridizing RNA to commercially available genome tiling arrays. To understand how bacterial pathogens taken up by C. elegans may affect transcription, we grew young adult worms on various pathogenic bacterial strains for either 24 or 48 hours and measured transcription levels. Simultaneously, young adult worms were also grown on non-pathogenic bacteria (OP50) as controls. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: Transcript tiling array analysis EXPERIMENT TYPE: Transcript tiling array analysis. BIOLOGICAL SOURCE: Strain: N2; Developmental Stage: Young Adult (pre-gravid) 25dC 46 hrs post-L1; Genotype: wild type; Sex: Hermaphrodite; NUMBER OF REPLICATES: 3; EXPERIMENTAL FACTORS: GrowthCondition P. luminescens (Hb); Developmental Stage Young Adult (pre-gravid) 25dC 46 hrs post-L1; Strain N2; age 24

2010-08-04 | E-GEOD-23272 | biostudies-arrayexpress

pathogen_Efaecalis_25dC_24hr_exposure_post-adulthood_N2_tiling_array

Project description:modENCODE_submission_487 This submission comes from a modENCODE project of Robert Waterston. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: Our experiments are designed to detect all C. elegans transcripts by hybridizing RNA to commercially available genome tiling arrays. To understand how bacterial pathogens taken up by C. elegans may affect transcription, we grew young adult worms on various pathogenic bacterial strains for either 24 or 48 hours and measured transcription levels. Simultaneously, young adult worms were also grown on non-pathogenic bacteria (OP50) as controls. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: Transcript tiling array analysis EXPERIMENT TYPE: Transcript tiling array analysis. BIOLOGICAL SOURCE: Strain: N2; Developmental Stage: Young Adult (pre-gravid) 25dC 46 hrs post-L1; Genotype: wild type; Sex: Hermaphrodite; NUMBER OF REPLICATES: 2; EXPERIMENTAL FACTORS: GrowthCondition E. faecalis (OG1RF); Developmental Stage Young Adult (pre-gravid) 25dC 46 hrs post-L1; Strain N2; age 24

2010-08-04 | E-GEOD-23273 | biostudies-arrayexpress

pathogen_Smarcescens_25dC_24hr_exposure_post-adulthood_N2_tiling_array

Project description:modENCODE_submission_489 This submission comes from a modENCODE project of Robert Waterston. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: Our experiments are designed to detect all C. elegans transcripts by hybridizing RNA to commercially available genome tiling arrays. To understand how bacterial pathogens taken up by C. elegans may affect transcription, we grew young adult worms on various pathogenic bacterial strains for either 24 or 48 hours and measured transcription levels. Simultaneously, young adult worms were also grown on non-pathogenic bacteria (OP50) as controls. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: Transcript tiling array analysis EXPERIMENT TYPE: Transcript tiling array analysis. BIOLOGICAL SOURCE: Strain: N2; Developmental Stage: Young Adult (pre-gravid) 25dC 46 hrs post-L1; Genotype: wild type; Sex: Hermaphrodite; NUMBER OF REPLICATES: 3; EXPERIMENTAL FACTORS: GrowthCondition S. marcescens (Db11); Developmental Stage Young Adult (pre-gravid) 25dC 46 hrs post-L1; Strain N2; age 24

2010-08-04 | E-GEOD-23275 | biostudies-arrayexpress

pathogen_Smarcescens_25dC_48hr_exposure_post-adulthood_N2_tiling_array

Project description:modENCODE_submission_488 This submission comes from a modENCODE project of Robert Waterston. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: Our experiments are designed to detect all C. elegans transcripts by hybridizing RNA to commercially available genome tiling arrays. To understand how bacterial pathogens taken up by C. elegans may affect transcription, we grew young adult worms on various pathogenic bacterial strains for either 24 or 48 hours and measured transcription levels. Simultaneously, young adult worms were also grown on non-pathogenic bacteria (OP50) as controls. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: Transcript tiling array analysis EXPERIMENT TYPE: Transcript tiling array analysis. BIOLOGICAL SOURCE: Strain: N2; Developmental Stage: Young Adult (pre-gravid) 25dC 46 hrs post-L1; Genotype: wild type; Sex: Hermaphrodite; NUMBER OF REPLICATES: 3; EXPERIMENTAL FACTORS: GrowthCondition S. marcescens (Db11); Developmental Stage Young Adult (pre-gravid) 25dC 46 hrs post-L1; Strain N2; age 48

2010-08-04 | E-GEOD-23274 | biostudies-arrayexpress

pathogen_controlOP50_25dC_24hr_exposure_post-adulthood_N2_tiling_array

Project description:modENCODE_submission_491 This submission comes from a modENCODE project of Robert Waterston. For full list of modENCODE projects, see http://www.genome.gov/26524648 Project Goal: Our experiments are designed to detect all C. elegans transcripts by hybridizing RNA to commercially available genome tiling arrays. To understand how bacterial pathogens taken up by C. elegans may affect transcription, we grew young adult worms on various pathogenic bacterial strains for either 24 or 48 hours and measured transcription levels. Simultaneously, young adult worms were also grown on non-pathogenic bacteria (OP50) as controls. For data usage terms and conditions, please refer to http://www.genome.gov/27528022 and http://www.genome.gov/Pages/Research/ENCODE/ENCODEDataReleasePolicyFinal2008.pdf Keywords: Transcript tiling array analysis EXPERIMENT TYPE: Transcript tiling array analysis. BIOLOGICAL SOURCE: Strain: N2; Developmental Stage: Young Adult (pre-gravid) 25dC 46 hrs post-L1; Genotype: wild type; Sex: Hermaphrodite; NUMBER OF REPLICATES: 3; EXPERIMENTAL FACTORS: GrowthCondition E. coli (OP50); Developmental Stage Young Adult (pre-gravid) 25dC 46 hrs post-L1; Strain N2; age 24

2010-08-04 | E-GEOD-23277 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data