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Sample GSM87404 Query DataSets for GSM87404
Status Public on May 01, 2006
Title Wild type E13.5 kidney rep 2 (430B)
Sample type RNA
 
Source name Wild type E13.5 kidneys replicate 2
Organism Mus musculus
Characteristics Wild type embryonic kidney at E13.5, CD-1 strain, whole kidney
Extracted molecule total RNA
Extraction protocol Kidneys were cleanly dissected from an wild type CD-1 E13.5 embryo, rinsed in PBS, pooled, 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 Wildtype complete (whole) E13.5 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 7423.4 P 0.00141
AFFX-BioB-M_at 11885.4 P 0.00007
AFFX-BioB-3_at 6504.7 P 0.00006
AFFX-BioC-5_at 19173 P 0.000081
AFFX-BioC-3_at 14052.2 P 0.000044
AFFX-BioDn-5_at 26380.5 P 0.000044
AFFX-BioDn-3_at 77673.8 P 0.000044
AFFX-CreX-5_at 189002.4 P 0.000044
AFFX-CreX-3_at 310375.8 P 0.000044
AFFX-DapX-5_at 754.6 P 0.011384
AFFX-DapX-M_at 364.2 A 0.559354
AFFX-DapX-3_at 425.6 A 0.737173
AFFX-LysX-5_at 49.8 A 0.783476
AFFX-LysX-M_at 150.6 A 0.824672
AFFX-LysX-3_at 69.9 A 0.783476
AFFX-PheX-5_at 71.9 A 0.937071
AFFX-PheX-M_at 65 A 0.860518
AFFX-PheX-3_at 193.6 A 0.699394
AFFX-ThrX-5_at 109.6 A 0.916408
AFFX-ThrX-M_at 102.7 A 0.824672

Total number of rows: 22575

Table truncated, full table size 620 Kbytes.




Supplementary file Size Download File type/resource
GSM87404.CEL.gz 3.2 Mb (ftp)(http) CEL
GSM87404.EXP.gz 492 b (ftp)(http) EXP
Raw data provided as supplementary file

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