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Sample GSM87394 Query DataSets for GSM87394
Status Public on May 01, 2006
Title Hoxa11, Hoxd11 null E12.5 kidney rep 1 (430B)
Sample type RNA
 
Source name Hoxa11, Hoxd11 null E12.5 kidneys replicate 1
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 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 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 1258.4 P 0.026111
AFFX-BioB-M_at 1441.3 P 0.000972
AFFX-BioB-3_at 630.1 P 0.01667
AFFX-BioC-5_at 2739.4 P 0.000754
AFFX-BioC-3_at 2081.9 P 0.000095
AFFX-BioDn-5_at 2553.2 P 0.00011
AFFX-BioDn-3_at 16429.3 P 0.000258
AFFX-CreX-5_at 22816 P 0.000044
AFFX-CreX-3_at 43853.3 P 0.000044
AFFX-DapX-5_at 110.3 A 0.52976
AFFX-DapX-M_at 188.5 A 0.185131
AFFX-DapX-3_at 60.3 A 0.712257
AFFX-LysX-5_at 12.2 A 0.891021
AFFX-LysX-M_at 187.8 A 0.686277
AFFX-LysX-3_at 238.7 A 0.067678
AFFX-PheX-5_at 15.7 A 0.973889
AFFX-PheX-M_at 26.4 A 0.891021
AFFX-PheX-3_at 233 A 0.41138
AFFX-ThrX-5_at 49.3 A 0.852061
AFFX-ThrX-M_at 25.8 A 0.824672

Total number of rows: 22575

Table truncated, full table size 617 Kbytes.




Supplementary file Size Download File type/resource
GSM87394.CEL.gz 3.4 Mb (ftp)(http) CEL
GSM87394.EXP.gz 501 b (ftp)(http) EXP
Raw data provided as supplementary file

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