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Sample GSM87396 Query DataSets for GSM87396
Status Public on May 01, 2006
Title Hoxa11, Hoxd11 null E13.5 kidney rep 1 (430B)
Sample type RNA
Source name Hoxa11, Hoxd11 null E13.5 kidneys replicate 1
Organism Mus musculus
Characteristics Hoxa11, Hoxd11 double null targeted embryonic kidney at E13.5, mixed C57, C3H and CF1 strain, whole kidney
Extracted molecule total RNA
Extraction protocol Both kidneys were cleanly dissected from an E13.5 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) E13.5 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 1926.3 P 0.004017
AFFX-BioB-M_at 2906.9 P 0.000169
AFFX-BioB-3_at 772.8 P 0.009337
AFFX-BioC-5_at 4509.5 P 0.00011
AFFX-BioC-3_at 2602.4 P 0.000081
AFFX-BioDn-5_at 3263.3 P 0.00006
AFFX-BioDn-3_at 23577.1 P 0.000225
AFFX-CreX-5_at 36379.2 P 0.000044
AFFX-CreX-3_at 58925.9 P 0.000044
AFFX-DapX-5_at 141.4 A 0.216524
AFFX-DapX-M_at 290.6 A 0.089478
AFFX-DapX-3_at 34.6 A 0.921998
AFFX-LysX-5_at 16.3 A 0.772364
AFFX-LysX-M_at 194.4 A 0.559354
AFFX-LysX-3_at 41.3 A 0.262827
AFFX-PheX-5_at 20 A 0.916408
AFFX-PheX-M_at 6 A 0.949771
AFFX-PheX-3_at 90.3 A 0.724854
AFFX-ThrX-5_at 54.6 A 0.860518
AFFX-ThrX-M_at 236.2 A 0.327079

Total number of rows: 22575

Table truncated, full table size 618 Kbytes.

Supplementary file Size Download File type/resource
GSM87396.CEL.gz 3.4 Mb (ftp)(http) CEL
GSM87396.EXP.gz 506 b (ftp)(http) EXP
Raw data provided as supplementary file

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