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Sample GSM87384 Query DataSets for GSM87384
Status Public on May 01, 2006
Title Hoxa11, Hoxd11 null E16.5 kidney rep 1 (430A)
Sample type RNA
 
Source name Hoxa11, Hoxd11 null E16.5 kidneys replicate 1
Organism Mus musculus
Characteristics Hoxa11, Hoxd11 double null targeted embryonic kidney at E16.5, mixed C57, C3H and CF1 strain, whole kidney
Extracted molecule total RNA
Extraction protocol Both kidneys were cleanly dissected from an E16.5 HoxA11/D11 targeted null embryo, rinsed in PBS, total RNA was prepared using the Stratagene Absolutely RNA Nanoprep Kit (La Jolla, CA)
Label biotin
Label protocol 30 ng of total RNA underwent two round of in vitro transcription according to Baugh LR, Hill AA, Brown EL, Hunter CP: Quantitative analysis of mRNA amplification by in vitro transcription. Nucleic Acids Res 29:E2938, 2001
 
Hybridization protocol standard Affymetrix procedures
Scan protocol standard Affymetrix procedures
Description Hoxa11, Hoxd11 double null targeted complete (whole) E16.5 kidney replicate 1
Data processing Affymetrix Microarray Suite version 5.0
 
Submission date Dec 12, 2005
Last update date Dec 12, 2005
Contact name Kristopher Robert Schwab
E-mail(s) kristopher.schwab@cchmc.org
Organization name Cincinnati Children's Hospital Research Foundation
Department Developmental Biology
Lab S. Steven Potter
Street address 3333 Burnett Ave
City Cincinnati
State/province OH
ZIP/Postal code 45229
Country USA
 
Platform ID GPL339
Series (1)
GSE3808 Complete embryonic metanephric kidney analysis of wild type and Hoxa11, Hoxd11 null targeted mice

Data table header descriptions
ID_REF
VALUE MAS5-calculated 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 337.4 P 0.004998
AFFX-BioB-M_at 608.1 P 0.00034
AFFX-BioB-3_at 268.9 P 0.001102
AFFX-BioC-5_at 1451.3 P 0.000052
AFFX-BioC-3_at 1321.4 P 0.000052
AFFX-BioDn-5_at 2241.2 P 0.000044
AFFX-BioDn-3_at 5528.7 P 0.000095
AFFX-CreX-5_at 8182.1 P 0.000044
AFFX-CreX-3_at 16915.1 P 0.000044
AFFX-DapX-5_at 32.7 A 0.340661
AFFX-DapX-M_at 48.4 A 0.275146
AFFX-DapX-3_at 39.3 A 0.48511
AFFX-LysX-5_at 14.6 A 0.645559
AFFX-LysX-M_at 37.7 A 0.574038
AFFX-LysX-3_at 5.8 A 0.455409
AFFX-PheX-5_at 5.9 A 0.897855
AFFX-PheX-M_at 3.4 A 0.932322
AFFX-PheX-3_at 62.5 A 0.368438
AFFX-ThrX-5_at 15.3 A 0.588627
AFFX-ThrX-M_at 19.8 A 0.574038

Total number of rows: 22690

Table truncated, full table size 629 Kbytes.




Supplementary file Size Download File type/resource
GSM87384.CEL.gz 3.4 Mb (ftp)(http) CEL
GSM87384.EXP.gz 488 b (ftp)(http) EXP
Raw data provided as supplementary file

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