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Sample GSM258432 Query DataSets for GSM258432
Status Public on Mar 31, 2008
Title Naive brain set C
Sample type RNA
 
Source name Rat whole brain
Organism Rattus norvegicus
Characteristics rats from five experimental groups were sacrificed 19–21 days after surgery
Treatment protocol Rats having the L5-L6 spinal nerves ligated (SNL) were performed, Sham-operation consisted of exposing the spinal nerves without ligation or manipulation. Naïve animals did not receive surgery.Rats were tested before and 12–14 days after surgery. Only SNL rats exhibiting a significantly reduced PWT in the ipsilateral limb were included in drug testing or gene expression studies (eight to twelve rats per group). Vehicle (0.9% saline) or gabapentin (GPN; 100 mg/kg dissolved in 0.9% saline) was administered intraperitoneally (i.p.) once a day for 7 days in a volume of 2 ml/kg. On the last (7th) treatment day (corresponding to 19–21 days post-surgery), rats were again assessed by PWT, in particular to confirm the reversal of neuropathic pain with GPN treatment.
Growth protocol For gene expression analysis, rats from five experimental groups were sacrificed 19–21 days after surgery
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
 
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 Gene expression data
Data processing The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method.
 
Submission date Jan 22, 2008
Last update date Jan 22, 2008
Contact name Jason Gang Jin
E-mail(s) jasongjin@gmail.com
Phone 732-220-9988
Fax 732-960-2355
Organization name MaxyBio
Street address 675 US Highway
City North Brunswick
ZIP/Postal code 08902
Country USA
 
Platform ID GPL87
Series (1)
GSE10238 Complement activation in the peripheral nervous system following the spinal nerve ligation model of neuropathic pain

Data table header descriptions
ID_REF
VALUE MAS5.0 signal intensity
ABS_CALL
DETECTION P-VALUE

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AA012646_i_at 86.5 M 0.05447
AA012646_r_at 1 A 0.567627
AA012654_at 1.8 A 0.956032
AA012693_at 2 A 0.795978
AA012699_at 14 A 0.089405
AA012708_f_at 224.9 P 0.003067
AA012709_at 84.4 P 0.001354
AA012719_at 2.2 A 0.88284
AA012727_at 8.7 A 0.5
AA012785_at 0.2 A 0.951005
AA012807_at 32.4 P 0.003067
AA012808_at 1.7 A 0.602006
AA108284_at 0.3 A 0.999327
AA684857_s_at 78.1 P 0.002228
AA684879_at 32 A 0.089405
AA684961_at 49.6 A 0.162935
AA685015_at 113.5 P 0.001892
AA685212_at 26.5 P 0.019304
AA685258_at 36.7 P 0.019304
AA685760_at 91 P 0.021866

Total number of rows: 8789

Table truncated, full table size 262 Kbytes.




Supplementary file Size Download File type/resource
GSM258432.CEL.gz 1.8 Mb (ftp)(http) CEL
Processed data included within Sample table

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