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Sample GSM466419 Query DataSets for GSM466419
Status Public on Oct 30, 2009
Title Adult 7d SNI; Biological replicate 6
Sample type RNA
 
Source name Rat spinal dorsal horn
Organism Rattus norvegicus
Characteristics strain: Sprague-Dawley
tissue: spinal cord (ipsilateral dorsal horn)
developmental stage: Adult (8-12wks)
treatment group: 7 day post sciatic nerve SNI injury
Treatment protocol SNI surgery was performed where the tibial and common peroneal branches of the sciatic nerve were tightly ligated with a silk suture and transected distally, while the sural nerve was left intact (Decosterd and Woolf, 2000). In sham-operated controls, the sciatic nerve was exposed but not ligated. Operation performed under isofluorane.
Growth protocol Standard laboratory rodent housing, with free access to water and food and were exposed to a 12:12 hour on/off light cycle. Pups left with mothers following surgery.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA.
Label Biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 5 ug total RNA.
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Drosophila Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description Global gene expression
Data processing The Bioconductor affy library was used to import CEL file data and the gcrma library was used to normalize the raw data.
 
Submission date Oct 29, 2009
Last update date Oct 29, 2009
Contact name Caroline Emma Johnston
E-mail(s) [email protected]
Organization name Kings College London
Street address 125 Coldharbour Lane
City London
ZIP/Postal code SE5 9NU
Country United Kingdom
 
Platform ID GPL341
Series (1)
GSE18803 Adult and Neonatal dorsal horn gene expression 7 day post sciatic nerve SNI injury

Data table header descriptions
ID_REF
VALUE gcRMA normalized (log2) signal intensity

Data table
ID_REF VALUE
1367452_at 10.59867079
1367453_at 11.070692
1367454_at 9.586031522
1367455_at 11.26153364
1367456_at 10.06052267
1367457_at 9.736575088
1367458_at 7.812360077
1367459_at 12.76505149
1367460_at 11.60621824
1367461_at 8.904407683
1367462_at 12.07592806
1367463_at 8.891312341
1367464_at 9.148158815
1367465_at 11.00189163
1367466_at 9.714641188
1367467_at 11.6496137
1367468_at 6.257309472
1367469_at 10.88453827
1367470_at 11.49132928
1367471_at 7.615998358

Total number of rows: 15923

Table truncated, full table size 358 Kbytes.




Supplementary file Size Download File type/resource
GSM466419.CEL.gz 2.5 Mb (ftp)(http) CEL
Processed data included within Sample table

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