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Sample GSM87380 Query DataSets for GSM87380
Status Public on May 01, 2006
Title Hoxa11, Hoxd11 null E12.5 kidney rep 1 (430A)
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 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 271.5 P 0.033677
AFFX-BioB-M_at 227.6 P 0.001102
AFFX-BioB-3_at 111.1 P 0.042962
AFFX-BioC-5_at 530.8 P 0.000972
AFFX-BioC-3_at 374.2 P 0.000258
AFFX-BioDn-5_at 484.7 P 0.000195
AFFX-BioDn-3_at 3171.3 P 0.00034
AFFX-CreX-5_at 4898 P 0.000044
AFFX-CreX-3_at 10048.3 P 0.000044
AFFX-DapX-5_at 16.6 A 0.51489
AFFX-DapX-M_at 57.2 A 0.195266
AFFX-DapX-3_at 16.7 A 0.843268
AFFX-LysX-5_at 8.8 A 0.814869
AFFX-LysX-M_at 12.1 A 0.58862
AFFX-LysX-3_at 36.6 A 0.205732
AFFX-PheX-5_at 3.1 A 0.966323
AFFX-PheX-M_at 13.6 A 0.699394
AFFX-PheX-3_at 57.5 A 0.41138
AFFX-ThrX-5_at 12 A 0.783476
AFFX-ThrX-M_at 11.3 A 0.58862

Total number of rows: 22690

Table truncated, full table size 630 Kbytes.




Supplementary file Size Download File type/resource
GSM87380.CEL.gz 3.6 Mb (ftp)(http) CEL
GSM87380.EXP.gz 502 b (ftp)(http) EXP
Raw data provided as supplementary file

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