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Sample GSM1820489 Query DataSets for GSM1820489
Status Public on Jul 12, 2016
Title SCN_ob/+_1
Sample type RNA
 
Source name sciatic nerve, female, 26 week, control
Organism Mus musculus
Characteristics gender: female
genotype/variation: ob/+
tissue: sciatic nerve
Treatment protocol N/A
Growth protocol N/A
Extracted molecule total RNA
Extraction protocol Total RNA was isolated from dorsal root ganglia and sciatic nerve biopsies using a commercially available kit (RNeasy Mini Kit; QIAGEN, Inc., Valencia, CA), including an on-column deoxyribonuclease digestion and following the manufacturer’s protocol. RNA quality and quantity were assessed by microfluid electrophoresis using an RNA 6000 Pico LabChip on a 2100 Bioanalyzer (Agilent Technologies, Inc., Santa Clara, CA).
Label biotin
Label protocol Biotinylated cDNA were prepared according to the Nugen Ovation V2 kit protocol from 75 ng total RNA (Ovation RNA Amplification System V2 Manual, 2007, NuGEN).
 
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
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) normalized using the BrainArray Custom CDF 16 Entrez.
 
Submission date Jul 13, 2015
Last update date Jul 12, 2016
Contact name Junguk Hur
E-mail(s) junguk.hur@med.und.edu
Organization name University of North Dakota
Department Biomedical Sciences
Street address 1301 N. Columbia Rd. Stop 9037
City Grand Forks
State/province ND
ZIP/Postal code 58202-9037
Country USA
 
Platform ID GPL16368
Series (1)
GSE70852 Dorsal root ganglia (DRG) and Sciatic nerve (SCN) in female BTBR ob/ob mice - diabetic peripheral neuropathy

Data table header descriptions
ID_REF
VALUE RMA signal - BrainArray Custom CDF v16 Entrez.

Data table
ID_REF VALUE
100008567_at 175.33
100009600_at 93.49
100012_at 9.74
100017_at 211.68
100019_at 264.26
100034251_at 902.63
100034739_at 19.89
100034748_at 28.72
100036520_at 104.40
100036521_at 498.33
100036523_at 28.53
100036768_at 23.33
100037258_at 1098.51
100037262_at 26.35
100037278_at 67.12
100038347_at 253.55
100038358_at 17.27
100038371_at 56.79
100038392_at 51.19
100038398_at 63.86

Total number of rows: 17565

Table truncated, full table size 277 Kbytes.




Supplementary file Size Download File type/resource
GSM1820489_EF2011-51_SCN-cont.CEL.gz 6.3 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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