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Sample GSM87399 Query DataSets for GSM87399
Status Public on May 01, 2006
Title Hoxa11, Hoxd11 null E16.5 kidney rep 2 (430B)
Sample type RNA
 
Source name Hoxa11, Hoxd11 null E16.5 kidneys replicate 2
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 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 1955.2 P 0.000754
AFFX-BioB-M_at 3105.3 P 0.000095
AFFX-BioB-3_at 1600 P 0.000581
AFFX-BioC-5_at 6770.9 P 0.000052
AFFX-BioC-3_at 6318 P 0.000044
AFFX-BioDn-5_at 12014.6 P 0.000044
AFFX-BioDn-3_at 25379.7 P 0.000081
AFFX-CreX-5_at 36563.1 P 0.000044
AFFX-CreX-3_at 73727.8 P 0.000052
AFFX-DapX-5_at 131 A 0.313723
AFFX-DapX-M_at 192.1 A 0.205732
AFFX-DapX-3_at 255.2 A 0.455413
AFFX-LysX-5_at 57.1 A 0.672921
AFFX-LysX-M_at 135.9 A 0.659339
AFFX-LysX-3_at 253.4 A 0.139482
AFFX-PheX-5_at 17.1 A 0.969035
AFFX-PheX-M_at 19.8 A 0.932322
AFFX-PheX-3_at 616.4 A 0.131361
AFFX-ThrX-5_at 99 A 0.631573
AFFX-ThrX-M_at 36.6 A 0.672921

Total number of rows: 22575

Table truncated, full table size 615 Kbytes.




Supplementary file Size Download File type/resource
GSM87399.CEL.gz 3.1 Mb (ftp)(http) CEL
GSM87399.EXP.gz 491 b (ftp)(http) EXP
Raw data provided as supplementary file

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