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Sample GSM87395 Query DataSets for GSM87395
Status Public on May 01, 2006
Title Hoxa11, Hoxd11 null E12.5 kidney rep 2 (430B)
Sample type RNA
 
Source name Hoxa11, Hoxd11 null E12.5 kidneys replicate 2
Organism Mus musculus
Characteristics Hoxa11, Hoxd11 double null targeted embryonic kidney at E12.5, mixed C57, C3H and CF1 strain, whole kidney
Extracted molecule total RNA
Extraction protocol Both kidneys were cleanly dissected from an E12.5 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) E12.5 kidney replicate 2
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 GPL340
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 2176.6 P 0.003212
AFFX-BioB-M_at 3402.2 P 0.000095
AFFX-BioB-3_at 946.6 P 0.001796
AFFX-BioC-5_at 5108.2 P 0.000225
AFFX-BioC-3_at 3558.2 P 0.000044
AFFX-BioDn-5_at 3917.4 P 0.000052
AFFX-BioDn-3_at 24699.4 P 0.000127
AFFX-CreX-5_at 42907.2 P 0.000044
AFFX-CreX-3_at 70889.5 P 0.000044
AFFX-DapX-5_at 110.5 A 0.275146
AFFX-DapX-M_at 218.6 A 0.156732
AFFX-DapX-3_at 69.6 A 0.794268
AFFX-LysX-5_at 14.4 A 0.824672
AFFX-LysX-M_at 53.3 A 0.794268
AFFX-LysX-3_at 159.5 A 0.227636
AFFX-PheX-5_at 35.3 A 0.834139
AFFX-PheX-M_at 25.3 A 0.852061
AFFX-PheX-3_at 123.4 A 0.382599
AFFX-ThrX-5_at 46.2 A 0.672921
AFFX-ThrX-M_at 63.3 A 0.60308

Total number of rows: 22575

Table truncated, full table size 617 Kbytes.




Supplementary file Size Download File type/resource
GSM87395.CEL.gz 3.4 Mb (ftp)(http) CEL
GSM87395.EXP.gz 502 b (ftp)(http) EXP
Raw data provided as supplementary file

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