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Sample GSM183760 Query DataSets for GSM183760
Status Public on Jan 01, 2008
Title 2091_n_r2
Sample type RNA
 
Source name E10.5 mouse limb bud
Organism Mus musculus
Characteristics GFP-negative, rest of limb
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 cells outside of the ZPA
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 Aug 28, 2018
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
Relations
Reanalyzed by GSE119085

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 447.6 P 0.000857
AFFX-BioB-M_at 796.1 P 0.000754
AFFX-BioB-3_at 466.7 P 0.000052
AFFX-BioC-5_at 1258.4 P 0.000662
AFFX-BioC-3_at 1395.1 P 0.000052
AFFX-BioDn-5_at 1727.9 P 0.000044
AFFX-BioDn-3_at 6078.3 P 0.000060
AFFX-CreX-5_at 16580.5 P 0.000052
AFFX-CreX-3_at 21561.9 P 0.000044
AFFX-DapX-5_at 11.3 A 0.672921
AFFX-DapX-M_at 2.5 A 0.937071
AFFX-DapX-3_at 29.1 A 0.185131
AFFX-LysX-5_at 2.7 A 0.876428
AFFX-LysX-M_at 7.8 A 0.686277
AFFX-LysX-3_at 11.5 A 0.313723
AFFX-PheX-5_at 1.7 A 0.963431
AFFX-PheX-M_at 4.6 A 0.843268
AFFX-PheX-3_at 19.5 A 0.500000
AFFX-ThrX-5_at 3.6 A 0.804754
AFFX-ThrX-M_at 40.7 A 0.156710

Total number of rows: 45101

Table truncated, full table size 1228 Kbytes.




Supplementary file Size Download File type/resource
GSM183760.CEL.gz 6.1 Mb (ftp)(http) CEL
GSM183760.EXP.gz 488 b (ftp)(http) EXP
Raw data provided as supplementary file
Processed data included within Sample table

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