NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM187651 Query DataSets for GSM187651
Status Public on Feb 03, 2008
Title gubernaculum_wt_GD20_male_right_A
Sample type RNA
 
Source name gubernaculum, LE/wt male fetus at gestational day 20 - fetus A
Organism Rattus norvegicus
Characteristics Strain: LE/wt
Gender: male
Age: Gestational day 20
Tissue: gubernaculum
Side: right
litter:4
fetus:13
Treatment protocol The lower half of a fetus was placed in RNAlater. After storage at 4'C for at least 24 hours, the gubernaculum was dissected and placed in lysis buffer from the RNeasy Mini Kit (Qiagen)
Extracted molecule total RNA
Extraction protocol Total RNA was isolated using the RNeasy Mini Kit (Qiagen) and contaminating DNA was removed with the RNAse-free DNase Set (Qiagen), both according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA was prepared as follows. 30 ng total RNA was amplified and labeled with the Affymetrix GeneChip Two-Cycle cDNA Synthesis Kit, according to the manufacturer's instructions.
Performed according to the standard Affymetrix protocol. This was performed at DuPont Haskell Laboratory for Health and Environmental Sciences.
 
Hybridization protocol Hybridization, washing and staining were performed according to the standard Affymetrix protocol with the Affymetrix Hybridization Oven 640 and GeneChip Fluidics Station. This was performed at DuPont Haskell Laboratory for Health and Environmental Sciences.
Scan protocol GeneChips were scanned with the Affymetix GeneArray Scanner. This was performed at DuPont Haskell Laboratory for Health and Environmental Sciences.
Description gubernaculum_wt_GD20_male_right_A
Data processing The GC-RMA algorithm was used within the AffylmGUI package of Bioconductor to calculate log2 expression values. CEL files from all samples from the same tissue in the series were input together.
 
Submission date May 07, 2007
Last update date Feb 03, 2008
Contact name Julia S. Barthold
E-mail(s) [email protected]
Organization name Nemours/AI duPont Hospital for Children
Department Urology
Street address 1600 Rockland Road
City Wilmington
State/province DE
ZIP/Postal code 19803
Country USA
 
Platform ID GPL341
Series (1)
GSE7755 Gene expression in fetal gubernaculum and testis of wildtype (LE/wt) and cryptorchid (LE/orl) rats

Data table header descriptions
ID_REF
VALUE GC-RMA expression value (log2)

Data table
ID_REF VALUE
1367452_at 13.24446805
1367453_at 9.255153543
1367454_at 10.38668993
1367455_at 11.67793132
1367456_at 11.76165643
1367457_at 10.02503178
1367458_at 3.804154973
1367459_at 12.91554068
1367460_at 11.96986508
1367461_at 10.67470424
1367462_at 10.60837823
1367463_at 10.49337926
1367464_at 10.349498
1367465_at 10.47053042
1367466_at 9.911899704
1367467_at 9.600270026
1367468_at 4.588270486
1367469_at 13.47419579
1367470_at 12.39890894
1367471_at 10.50920711

Total number of rows: 15923

Table truncated, full table size 358 Kbytes.




Supplementary file Size Download File type/resource
GSM187651.CEL.gz 1.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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