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Sample GSM677108 Query DataSets for GSM677108
Status Public on Feb 18, 2011
Title db/+ mouse sample 105
Sample type RNA
 
Source name 24 week db/+ mouse sciatic nerve
Organism Mus musculus
Characteristics tissue: sciatic nerve
strain: BKS
genotype/variation: db/+
age: 24 weeks
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from sciatic nerve using a commercially available silica gel-based isolation protocol (RNeasy Mini Kit, QIAGEN Inc., Valencia, CA) including an on-column DNase digestion following the manufacturer's protocol. RNA quantity and quality was measured by microfluid electrophoresis using the RNA 6000 Pico LabChip® on a 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA).
Label biotin
Label protocol Of the total RNA, 75 ng from each sample was amplified and biotin-labeled using the Ovation™ Biotin-RNA Amplification and Labeling System (NuGEN Technologies Inc., San Carlos, CA) according to the manufacturer’s protocol
 
Hybridization protocol Following Labeling, 4 ug of cDNA were hybridized for 16 hr at 45C on GeneChip Mouse 430 2.0 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using the Affymetrix 3000 7G GeneChip Scanner with Autoloader.
Description Gene expression data from 24 week db/+ mouse sciatic nerve
Data processing The Affymetrix CEL files were initially analyzed using a local version of the GenePattern genomic analysis platform from the Broad Institute. The samples were Robust Multi-array Average (RMA).
 
Submission date Feb 17, 2011
Last update date Jan 06, 2012
Contact name Manjusha Pande
E-mail(s) [email protected]
Organization name University of Michigan
Department BRCF
Lab Bioinformatics Core
Street address 2800 Plymouth Rd.
City Ann Arobr
ZIP/Postal code 48109
Country USA
 
Platform ID GPL9746
Series (2)
GSE27382 Transcriptional Profiling of Diabetic Neuropathy in BKS-db/db Mouse, a Model for Type 2 Diabetes
GSE34889 Molecular Mechanisms of Diabetic Neuropathy: A Transcriptional Profling Study of db/db Mouse Sciatic Nerve

Data table header descriptions
ID_REF
VALUE log2 RMA signal

Data table
ID_REF VALUE
100009600_at 6.385
100017_at 9.066
100019_at 9.225
100034251_at 13.555
100036521_at 10.731
100037258_at 11.315
100037278_at 8.846
100038570_at 9.176
100038635_at 4.32
100038887_at 12.329
100038959_at 8.631
100039027_at 3.569
100039094_at 4.581
100039235_at 6.463
100039282_at 3.362
100039284_at 8.604
100039307_at 6.781
100039332_at 4.799
100039359_at 5.469
100039495_at 9.139

Total number of rows: 15479

Table truncated, full table size 235 Kbytes.




Supplementary file Size Download File type/resource
GSM677108_Feldman_105.CEL.gz 6.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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