NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM915733 Query DataSets for GSM915733
Status Public on Dec 07, 2017
Title Male of wild-type N2, fed biological rep1
Sample type RNA
 
Source name Males ad libitum fed
Organism Caenorhabditis elegans
Characteristics genetic background: N2
genotype: wild type
tissue: Whole body
age: Day 4 of adulthood
gender: male
treatment: fed ad libitum
Treatment protocol At the young adult stage, worms were transferred to NGM plats containing 200 ug/ml of 5’fluoro-2’deoxyuridine (FUdR) to prevent progenies from hatching. At day 2 of adulthood, worms were devided into 2 groups, fed and fasting. In the fed group, worms were allowed to feed ad libitum for 2 days. In the fasting group, worms were placed on NGM plates withour food and subjected to 48 hours of fasting.
Growth protocol Synchronized wild-type N2 worms were grown on NGM plates at 20 C. At the young adult stage, males were separated from hermaphrodites by filtration through a 37 mm nylon mesh.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions with a minor modification (the addition of sterilized glass beads for homogenization). The extracted RNA was purified and treated with DNase using an RNeasy Mini Kit (Qiagen)
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 250 ng total RNA (GeneChip 3' IVT Express kit mannual, Affymetrix). IVT incubation time was 16 hours.
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip C. elegans Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner.
Description Gene expression data from adult worms after the completion of development
Data processing Images from scanned chips were processed by using the default settings of the AGCC viewer. The Affymetrix output (CEL files) was imported into GeneSpring GX 12.0 (Agilent Technologies) microarray analysis software for the statistical analysis and presentation of the expression profiles. The CEL files were individually scaled to a median target signal of 500. The probe intensities, expression signals and fold changes of all genes (probe sets) were calculated using MAS5 implemented in GeneSpring software.
 
Submission date Apr 16, 2012
Last update date Dec 07, 2017
Contact name Eisuke Nishida
E-mail(s) nishida@lif.kyoto-u.ac.jp
Phone +81-75-753-4230
Organization name Graduate School of Biostudies, Kyoto University
Department Department of Cell and Developmental Biology
Street address Kitashirakawa, Sakyo-ku
City Kyoto
ZIP/Postal code 606-8502
Country Japan
 
Platform ID GPL200
Series (2)
GSE37303 Fasting induced changes in gene expression profiles of C. elegans
GSE37305 Age and Fasting in C. elegans

Data table header descriptions
ID_REF
VALUE MAS5.0 signal intensity

Data table
ID_REF VALUE
AFFX-BioB-5_at 8.471366
AFFX-BioB-M_at 9.2789135
AFFX-BioB-3_at 8.31088
AFFX-BioC-5_at 9.633122
AFFX-BioC-3_at 9.851747
AFFX-BioDn-5_at 10.994602
AFFX-BioDn-3_at 12.026476
AFFX-CreX-5_at 13.569087
AFFX-CreX-3_at 13.705245
AFFX-DapX-5_at 4.9800696
AFFX-DapX-M_at 6.5489783
AFFX-DapX-3_at 6.943546
AFFX-LysX-5_at 4.1619673
AFFX-LysX-M_at 2.5457487
AFFX-LysX-3_at 4.3220797
AFFX-PheX-5_at 2.310036
AFFX-PheX-M_at 2.8152487
AFFX-PheX-3_at 5.810398
AFFX-ThrX-5_at 2.7412572
AFFX-ThrX-M_at 3.6691096

Total number of rows: 22625

Table truncated, full table size 443 Kbytes.




Supplementary file Size Download File type/resource
GSM915733_N2_MaleD4AL_1_Celegans_.CEL.gz 1.9 Mb (ftp)(http) CEL
Processed data included within Sample table

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap