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Sample GSM1397409 Query DataSets for GSM1397409
Status Public on Nov 11, 2014
Title OC2-KO adult 1
Sample type RNA
 
Source name OC2-KO adult retina
Organism Mus musculus
Characteristics tissue: retina
Stage: adult
onecut genotype: OC2-KO
Treatment protocol Retinas were isolated from adult eyes and rinsed in 1X PBS.
Growth protocol Littermates were allowed to develop normally in utero until maturity
Extracted molecule total RNA
Extraction protocol Trireagent extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Total RNA wa amplified, biotinylated, and fragmented using the Ambion MessageAmp III RNA amplification kit according to manufacturer's instructions.
 
Hybridization protocol Amplified RNA was hybridized to Affymetrix GeneChip Mouse Genome 430 2.0 arrays at the Iowa State University GeneChip Facility.
Scan protocol Amplified RNA was scanned from Affymetrix GeneChip Mouse Genome 430 2.0 arrays at the Iowa State University GeneChip Facility.
Description Gene expression information from isolated adult retinas
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
 
Submission date May 22, 2014
Last update date Nov 11, 2014
Contact name Jeffrey M Trimarchi
E-mail(s) jtrimarc@iastate.edu
Phone 2172190210
Organization name Iowa State University
Department GDCB
Lab Trimarchi
Street address 3188 Molecular Biology Building
City Ames
State/province IA
ZIP/Postal code 50014
Country USA
 
Platform ID GPL1261
Series (1)
GSE57918 Expression data from adult Onecut2 WT and KO animals

Data table header descriptions
ID_REF
VALUE Signal
ABS_CALL indicating whether the transcript was present (P), absent (A), or marginal (M)
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 1560.5 P 4.42873e-05
AFFX-BioB-M_at 3320.08 P 4.42873e-05
AFFX-BioB-3_at 1889.53 P 4.42873e-05
AFFX-BioC-5_at 4167.98 P 5.16732e-05
AFFX-BioC-3_at 4811.25 P 0.00010954
AFFX-BioDn-5_at 10272 P 5.16732e-05
AFFX-BioDn-3_at 14251.7 P 4.42873e-05
AFFX-CreX-5_at 50367.3 P 5.16732e-05
AFFX-CreX-3_at 51417.7 P 4.42873e-05
AFFX-DapX-5_at 2.69939 A 0.969069
AFFX-DapX-M_at 8.03323 A 0.760956
AFFX-DapX-3_at 3.41017 A 0.969035
AFFX-LysX-5_at 3.48857 A 0.973889
AFFX-LysX-M_at 11.5134 A 0.883887
AFFX-LysX-3_at 39.39 A 0.13134
AFFX-PheX-5_at 4.7979 A 0.960339
AFFX-PheX-M_at 2.84941 A 0.966335
AFFX-PheX-3_at 7.57382 A 0.843268
AFFX-ThrX-5_at 41.8577 A 0.617411
AFFX-ThrX-M_at 27.8194 A 0.737191

Total number of rows: 45101

Table truncated, full table size 1371 Kbytes.




Supplementary file Size Download File type/resource
GSM1397409_OC2_adult_1.CEL.gz 3.1 Mb (ftp)(http) CEL
GSM1397409_OC2_adult_1.mas5.CHP.gz 405.7 Kb (ftp)(http) CHP
Raw data provided as supplementary file
Processed data included within Sample table
Processed data provided as supplementary file

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