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Sample GSM204048 Query DataSets for GSM204048
Status Public on Aug 02, 2007
Title Unfertilized Egg_3wk. FVB
Sample type RNA
 
Source name Unfertilized eggs from superovulated 3wk. FVB mice
Organism Mus musculus
Characteristics Unfertilized eggs were seperated from cumulus cells from 3wk. FVB mice.
Biomaterial provider Castrillon Laboratory
Treatment protocol FVB mice were treated with pregnant mare serum (5IU/mouse) followed by a single dose 42 hours later of human chorionic gonadotropin (5IU/mouse). Adult mice were sacrificed by CO2 asphyxiation followed by cervical dislocation 24 hours after last injection. Complexes were collected in HEPES buffer, washed, and digested with hyaluronidase. Oocytes were seperated from somatice cells, washed and total RNA prepared using 1ml of Tripure (Roche) and 20mg glycogen as per manufacturer's instructions
Growth protocol All experiments used Foxo3 littermates or FVB wild-type mice from our own breeding colony. Animals were maintained in a pathogenfree facility administered by U.T. Southwestern Medical Center in accordance with the institutional guidelines of Charles River Laboratories. A maximum of five minutes was allowed to elapse between sacrifice and tissue harvest to prevent RNA degradation and transcriptional changes
Extracted molecule total RNA
Extraction protocol Total RNA extraction was performed using 1ml of Tripure (Roche) and 20mg of glycogen per manufacturer's instructions.
Label Biotin
Label protocol Biotinylated cRNA was prepared (ENZO BioArray IVT kit) following two rounds of RNA amplification using the Eberwine method of amplification (Phillips and Eberwine, 1996).
 
Hybridization protocol Following fragmentation, 15 micrograms of cRNA were hybridized for 16 hr at 45C on Mouse Genome 430 2.0 Array in the Affymetrix Hybridization oven 640. GeneChips were washed and stained in the Affymetrix Fluidics Station 400 per manufacturer's instructions.
Scan protocol GeneChips were scanned using the Agilent Gene Array Scanner (Affymetrix).
Description Gene expression data on Affymetrix Mouse Genome 430 2.0 chip.
Data processing GCOS v1.4.0.036 with probe sets scaled to a target signal of 250.
 
Submission date Jun 22, 2007
Last update date Aug 28, 2018
Contact name Diego H Castrillon
E-mail(s) diego.castrillon@utsouthwestern.edu
Organization name U.T. Southwestern Medical Center
Department Pathology
Lab Castrillon
Street address 6000 Harry Hines Blvd. NB6.126
City Dallas
State/province TX
ZIP/Postal code 75390
Country USA
 
Platform ID GPL1261
Series (1)
GSE8249 Systematic discovery and classification of ovarian fertility factors.
Relations
Reanalyzed by GSE119085

Data table header descriptions
ID_REF
VALUE GCOS v1.4.0.036 -calculated Signal intensity
ABS_CALL the call in an absolute analysis that indicates if the transcript was present (P), absent (A), marginal (M), or no call (NC)
DETECTION P-VALUE 'detection p-value', p-value that indicates the significance level of the detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 155.222 P 0.00159257
AFFX-BioB-M_at 234.578 P 0.000195116
AFFX-BioB-3_at 132.594 P 0.00010954
AFFX-BioC-5_at 511.336 P 6.02111e-05
AFFX-BioC-3_at 497.305 P 4.42873e-05
AFFX-BioDn-5_at 767.382 P 4.42873e-05
AFFX-BioDn-3_at 2323.53 P 6.02111e-05
AFFX-CreX-5_at 5247.37 P 5.16732e-05
AFFX-CreX-3_at 6374.29 P 4.42873e-05
AFFX-DapX-5_at 9.39749 A 0.239063
AFFX-DapX-M_at 10.012 A 0.275146
AFFX-DapX-3_at 9.91918 A 0.712257
AFFX-LysX-5_at 0.891754 A 0.843268
AFFX-LysX-M_at 4.14932 A 0.737191
AFFX-LysX-3_at 11.1847 A 0.0956669
AFFX-PheX-5_at 2.04191 A 0.9273
AFFX-PheX-M_at 1.91358 A 0.760937
AFFX-PheX-3_at 7.967 A 0.58862
AFFX-ThrX-5_at 13.1492 A 0.659339
AFFX-ThrX-M_at 2.14772 A 0.712274

Total number of rows: 45101

Table truncated, full table size 1376 Kbytes.




Supplementary file Size Download File type/resource
GSM204048.CEL.gz 6.6 Mb (ftp)(http) CEL
GSM204048.CHP.gz 11.9 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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