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Sample GSM188090 Query DataSets for GSM188090
Status Public on Jun 21, 2007
Title Adult Crop biological rep3
Sample type RNA
 
Source name Adult Crops
Organism Drosophila melanogaster
Characteristics tissue: Canton-S, 40 female and 40 male flies, 7 days old
Treatment protocol Flies were anaesthetised briefly by chilling on ice, then immediately dissected.
Growth protocol Wild-type Drosophila melanogaster (Canton S strain) were raised on standard medium on a 12:12 h L:D cycle, at 23C, and at 55% r.h. To facilitate the collection of accurately staged adults, a laying population of around 12 males and 12 females were transferred to fresh vials daily. When adults subsequently emerged, they were transferred to fresh vials on the day of emergence, and used 7 days later. Where larvae were used, these were third instar.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using RNeasy Micro kit (Invitrogen) according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, 2004, Affymetrix)
 
Hybridization protocol Following fragmentation, 10 ug of cRNA (or according to the affy IVT protocol) were hybridized for 16 hr at 45C on GeneChip Drosophila Genome 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the GeneChip scanner 3000 7G.
Description The crop
amplification: 1-round
Data processing The data were analyzed with GCOS1.4 using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
 
Submission date May 09, 2007
Last update date Aug 28, 2018
Contact name Jing Wang or Venkat Chintapalli
E-mail(s) jw128h@udcf.gla.ac.uk, vrc1h@udcf.gla.ac.uk
Phone 0141 3306212
Fax 3304878
Organization name University of Glasgow
Department Molecular Genetics
Lab Dow/Davis lab
Street address Dumbarton Road
City Glasgow
State/province Scotland
ZIP/Postal code G11 6NU
Country United Kingdom
 
Platform ID GPL1322
Series (1)
GSE7763 Using FlyAtlas to identify better Drosophila models of human disease
Relations
Reanalyzed by GSE119084

Data table header descriptions
ID_REF
VALUE GCOS1.4 signal intensity (MAS 5)
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 154.094 P 6.02111e-05
AFFX-BioB-M_at 171.382 P 0.000224668
AFFX-BioB-3_at 112.049 P 9.4506e-05
AFFX-BioC-5_at 330.745 P 5.16732e-05
AFFX-BioC-3_at 373.757 P 4.42873e-05
AFFX-BioDn-5_at 864.718 P 4.42873e-05
AFFX-BioDn-3_at 1732.16 P 5.16732e-05
AFFX-CreX-5_at 4257.17 P 5.16732e-05
AFFX-CreX-3_at 5582.22 P 4.42873e-05
AFFX-DapX-5_at 0.756176 A 0.48511
AFFX-DapX-M_at 6.41075 A 0.327079
AFFX-DapX-3_at 0.999866 A 0.852061
AFFX-LysX-5_at 0.861592 A 0.760937
AFFX-LysX-M_at 1.64693 A 0.712257
AFFX-LysX-3_at 5.79233 A 0.108979
AFFX-PheX-5_at 0.310951 A 0.916408
AFFX-PheX-M_at 1.19643 A 0.712257
AFFX-PheX-3_at 4.40044 A 0.724854
AFFX-ThrX-5_at 1.14604 A 0.749204
AFFX-ThrX-M_at 1.60591 A 0.712257

Total number of rows: 18952

Table truncated, full table size 579 Kbytes.




Supplementary file Size Download File type/resource
GSM188090.CEL.gz 1.9 Mb (ftp)(http) CEL
GSM188090.CHP.gz 108.6 Kb (ftp)(http) CHP
GSM188090.xml.gz 4.6 Kb (ftp)(http) XML
Processed data included within Sample table
Processed data provided as supplementary file

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