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Sample GSM183759 Query DataSets for GSM183759
Status Public on Jan 01, 2008
Title 2089_n_r1
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 163.4 P 0.011384
AFFX-BioB-M_at 349.6 P 0.000857
AFFX-BioB-3_at 245.0 P 0.000044
AFFX-BioC-5_at 792.4 P 0.000225
AFFX-BioC-3_at 797.7 P 0.000052
AFFX-BioDn-5_at 1088.2 P 0.000044
AFFX-BioDn-3_at 3594.7 P 0.000060
AFFX-CreX-5_at 12283.8 P 0.000044
AFFX-CreX-3_at 15158.7 P 0.000044
AFFX-DapX-5_at 17.3 A 0.354453
AFFX-DapX-M_at 55.0 A 0.147939
AFFX-DapX-3_at 36.2 A 0.425962
AFFX-LysX-5_at 3.1 A 0.916408
AFFX-LysX-M_at 8.4 A 0.916408
AFFX-LysX-3_at 29.3 P 0.028457
AFFX-PheX-5_at 1.3 A 0.992380
AFFX-PheX-M_at 5.6 A 0.852061
AFFX-PheX-3_at 10.4 A 0.631562
AFFX-ThrX-5_at 19.1 A 0.559354
AFFX-ThrX-M_at 30.0 A 0.216524

Total number of rows: 45101

Table truncated, full table size 1229 Kbytes.




Supplementary file Size Download File type/resource
GSM183759.CEL.gz 6.0 Mb (ftp)(http) CEL
GSM183759.EXP.gz 380 b (ftp)(http) EXP
Raw data provided as supplementary file
Processed data included within Sample table

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