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Sample GSM460224 Query DataSets for GSM460224
Status Public on Oct 08, 2009
Title 5th Passage Drosophila S2 Cells biological rep3
Sample type RNA
 
Source name 5th Passage Drosophila S2 Cells
Organism Drosophila melanogaster
Characteristics tissue: Drosophila S2 (Schneider) cells (5th passage) 5million
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 Drosophila Schneider' s Cells at 5th passage
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 Oct 08, 2009
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 91.4716 P 0.000146581
AFFX-BioB-M_at 118.032 P 0.00010954
AFFX-BioB-3_at 73.4244 P 0.000258358
AFFX-BioC-5_at 184.303 P 0.000169227
AFFX-BioC-3_at 174.295 P 4.42873e-05
AFFX-BioDn-5_at 430.049 P 4.42873e-05
AFFX-BioDn-3_at 950.329 P 7.00668e-05
AFFX-CreX-5_at 2275.92 P 4.42873e-05
AFFX-CreX-3_at 2840 P 4.42873e-05
AFFX-DapX-5_at 0.454066 A 0.631562
AFFX-DapX-M_at 0.551918 A 0.631562
AFFX-DapX-3_at 0.603365 A 0.949771
AFFX-LysX-5_at 0.301226 A 0.945787
AFFX-LysX-M_at 2.1616 A 0.760937
AFFX-LysX-3_at 1.52246 A 0.156732
AFFX-PheX-5_at 0.307046 A 0.760937
AFFX-PheX-M_at 0.335499 A 0.979978
AFFX-PheX-3_at 3.48817 A 0.783476
AFFX-ThrX-5_at 1.32805 A 0.659339
AFFX-ThrX-M_at 3.83306 A 0.631562

Total number of rows: 18952

Table truncated, full table size 580 Kbytes.




Supplementary file Size Download File type/resource
GSM460224.CEL.gz 2.2 Mb (ftp)(http) CEL
GSM460224.CHP.gz 107.3 Kb (ftp)(http) CHP
GSM460224.xml.gz 4.7 Kb (ftp)(http) XML
Processed data included within Sample table
Processed data provided as supplementary file

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