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Sample GSM87398 Query DataSets for GSM87398
Status Public on May 01, 2006
Title Hoxa11, Hoxd11 null E16.5 kidney rep 1 (430B)
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
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
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
AFFX-BioB-5_at 2537.4 P 0.000581
AFFX-BioB-M_at 3700.7 P 0.000052
AFFX-BioB-3_at 1905.4 P 0.000225
AFFX-BioC-5_at 8680 P 0.000044
AFFX-BioC-3_at 8392 P 0.000052
AFFX-BioDn-5_at 16805.8 P 0.000044
AFFX-BioDn-3_at 30462.6 P 0.000052
AFFX-CreX-5_at 47873.5 P 0.000044
AFFX-CreX-3_at 86274.5 P 0.000044
AFFX-DapX-5_at 167.2 A 0.102165
AFFX-DapX-M_at 169.2 A 0.275146
AFFX-DapX-3_at 17.6 A 0.949771
AFFX-LysX-5_at 9.6 A 0.897835
AFFX-LysX-M_at 60 A 0.804734
AFFX-LysX-3_at 64.5 A 0.425962
AFFX-PheX-5_at 31 A 0.814869
AFFX-PheX-M_at 11.4 A 0.993813
AFFX-PheX-3_at 193.4 A 0.48511
AFFX-ThrX-5_at 49.7 A 0.824672
AFFX-ThrX-M_at 14.2 A 0.937071

Total number of rows: 22575

Table truncated, full table size 614 Kbytes.

Supplementary file Size Download File type/resource
GSM87398.CEL.gz 3.1 Mb (ftp)(http) CEL
GSM87398.EXP.gz 489 b (ftp)(http) EXP
Raw data provided as supplementary file

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