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Sample GSM183756 Query DataSets for GSM183756
Status Public on Jan 01, 2008
Title 2090_z_r2
Sample type RNA
 
Source name E10.5 mouse limb bud
Organism Mus musculus
Characteristics GFP-positive, ZPA
Treatment protocol After dissociating the limbs into single cell suspensions, GFP-positive (ZPA) and GFP-negative (rest of the limb) cells were purified by FACS.
Growth protocol Shhgfpcre heterozygotes were harvested at E10.5.
Extracted molecule total RNA
Extraction protocol Qiagen RNeasy according to manufacturer's instructions
Label biotin
Label protocol Biotinylated cRNA was prepared according to the two-cycle Affymetrix protocol from 50ng total RNA (Expression Analysis Technical Manual, 2003, Affymetrix).
 
Hybridization protocol Following fragmentation, 15 ug of cRNA was hybridized for 16 hr at 45C on Mu430 2.0 A Array. GeneChips were processed on GeneChip fluidics station F450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
Description gene expression from ZPA cells
Data processing The data were analyzed with GCOS 1.3 using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
 
Submission date Apr 24, 2007
Last update date Oct 29, 2007
Contact name Brian Harfe
E-mail(s) bharfe@mgm.ufl.edu
Organization name University of Florida
Department Molecular Genetics and Microbiology
Street address 1376 Mowry Road
City Gainesville
State/province FL
ZIP/Postal code 32610
Country USA
 
Platform ID GPL1261
Series (1)
GSE7598 Identification and characterization of genes expressed in the mouse ZPA using a novel microarray approach

Data table header descriptions
ID_REF
VALUE normalized 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 5666.7 P 0.000127
AFFX-BioB-M_at 8686.4 P 0.000044
AFFX-BioB-3_at 5428.7 P 0.000044
AFFX-BioC-5_at 12442.8 P 0.000052
AFFX-BioC-3_at 11246.8 P 0.000052
AFFX-BioDn-5_at 14215.6 P 0.000044
AFFX-BioDn-3_at 52584.4 P 0.000044
AFFX-CreX-5_at 125404.5 P 0.000052
AFFX-CreX-3_at 165082.7 P 0.000044
AFFX-DapX-5_at 30.9 A 0.500000
AFFX-DapX-M_at 70.9 A 0.588620
AFFX-DapX-3_at 12.8 A 0.945802
AFFX-LysX-5_at 114.5 A 0.185131
AFFX-LysX-M_at 15.2 A 0.891041
AFFX-LysX-3_at 10.9 A 0.672921
AFFX-PheX-5_at 80.3 A 0.814869
AFFX-PheX-M_at 7.4 A 0.921998
AFFX-PheX-3_at 19.9 A 0.824672
AFFX-ThrX-5_at 63.6 A 0.672935
AFFX-ThrX-M_at 5.7 A 0.953547

Total number of rows: 45101

Table truncated, full table size 1236 Kbytes.




Supplementary file Size Download File type/resource
GSM183756.CEL.gz 5.3 Mb (ftp)(http) CEL
GSM183756.EXP.gz 266 b (ftp)(http) EXP
Raw data provided as supplementary file
Processed data included within Sample table

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