NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM87397 Query DataSets for GSM87397
Status Public on May 01, 2006
Title Hoxa11, Hoxd11 null E13.5 kidney rep 2 (430B)
Sample type RNA
 
Source name Hoxa11, Hoxd11 null E13.5 kidneys replicate 2
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 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 2025.1 P 0.013811
AFFX-BioB-M_at 1967.8 P 0.000581
AFFX-BioB-3_at 923.2 P 0.018281
AFFX-BioC-5_at 3422.5 P 0.000754
AFFX-BioC-3_at 1705.5 P 0.000509
AFFX-BioDn-5_at 3580.6 P 0.000095
AFFX-BioDn-3_at 23095.2 P 0.000509
AFFX-CreX-5_at 29912.3 P 0.000044
AFFX-CreX-3_at 54291.5 P 0.000044
AFFX-DapX-5_at 566.9 M 0.054213
AFFX-DapX-M_at 637 M 0.058444
AFFX-DapX-3_at 46.4 A 0.9273
AFFX-LysX-5_at 44.6 A 0.760937
AFFX-LysX-M_at 114.3 A 0.58862
AFFX-LysX-3_at 257.1 A 0.250796
AFFX-PheX-5_at 35.1 A 0.843268
AFFX-PheX-M_at 36.6 A 0.941556
AFFX-PheX-3_at 439.3 A 0.216524
AFFX-ThrX-5_at 52.2 A 0.783476
AFFX-ThrX-M_at 142.4 A 0.39692

Total number of rows: 22575

Table truncated, full table size 618 Kbytes.




Supplementary file Size Download File type/resource
GSM87397.CEL.gz 3.5 Mb (ftp)(http) CEL
GSM87397.EXP.gz 501 b (ftp)(http) EXP
Raw data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap