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Sample GSM915731 Query DataSets for GSM915731
Status Public on Dec 07, 2017
Title Hermaphrodite of wild-type N2, fasting biological rep2
Sample type RNA
 
Source name Hermaphrodites subjected to 48 hors of fasting, beginning at day 2 of adulthood
Organism Caenorhabditis elegans
Characteristics genetic background: N2
genotype: wild type
tissue: Whole body
age: Day 4 of adulthood
gender: Hermaphrodite
treatment: fasted
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 7.9801626
AFFX-BioB-M_at 8.81485
AFFX-BioB-3_at 8.072042
AFFX-BioC-5_at 9.308272
AFFX-BioC-3_at 9.20936
AFFX-BioDn-5_at 10.49786
AFFX-BioDn-3_at 11.517774
AFFX-CreX-5_at 13.00069
AFFX-CreX-3_at 13.480692
AFFX-DapX-5_at 5.8937173
AFFX-DapX-M_at 7.4699006
AFFX-DapX-3_at 7.4091396
AFFX-LysX-5_at 1.3197786
AFFX-LysX-M_at 2.9778812
AFFX-LysX-3_at 1.5511789
AFFX-PheX-5_at 1.4779563
AFFX-PheX-M_at 4.1026993
AFFX-PheX-3_at 5.492814
AFFX-ThrX-5_at 4.422758
AFFX-ThrX-M_at 4.636824

Total number of rows: 22625

Table truncated, full table size 444 Kbytes.




Supplementary file Size Download File type/resource
GSM915731_N2_HermD4fasting_2_Celegans_.CEL.gz 1.9 Mb (ftp)(http) CEL
Processed data included within Sample table

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