NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM413160 Query DataSets for GSM413160
Status Public on Jul 31, 2010
Title Gastrocnemius Muscle_WT_rep2
Sample type RNA
 
Source name Gastrocnemius, WT, 2 months old
Organism Mus musculus
Characteristics strain: C57BL/6J
genotype: wild type
gender: male
age: 2 months
tissue: Gastrocnemius muscle
Growth protocol All mice were maintained in the institute animal facility following the IACUC guidelines.
Extracted molecule total RNA
Extraction protocol Trizol extraction of total RNA was performed according to the manufacturer's instructions followed by further purification on a silica-gel-based membrane (RNeasy-Mini; Qiagen, Valencia, CA).
Label Biotin
Label protocol The Ovation™ Biotin RNA Amplification and Labeling System (NuGen Technologies, Inc., San Carlos, CA) was used to prepare amplified, biotin-labeled cDNA from 25 ng of total RNA following manufacturer’s instructions.
 
Hybridization protocol For each array, 2.2 µg of fragmented and labeled cDNA was hybridized onto 430 2.0 GeneChips® (Affymetrix Inc., USA), for 16 hours at 45ºC followed by washing and staining of microarrays in a Fluidics Station 450 (Affymetrix Inc., USA).
Scan protocol GeneChips were scanned in a GeneChip Scanner 3000 (Affymetrix Inc., USA).
Description Gene expression data from skeletal muscle of two-month-old WT mouse.
65WT Skeletal Muscle
Data processing CEL files were generated from DAT files using GeneChip® Operating Software (GCOS) software (Affymetrix Inc., USA) and probe set signals were generated using the RMA algorithm in ArrayAssist 3.4 (Stratagene). Differential gene expression was determined by pair-wise comparisons.
 
Submission date Jun 04, 2009
Last update date Dec 21, 2009
Contact name Paul T Martin
E-mail(s) [email protected]
Organization name Columbus Children's Research Institute
Street address 700 Children's Drive
City Columbus
State/province OH
ZIP/Postal code 43205
Country USA
 
Platform ID GPL1261
Series (1)
GSE16438 Array profiling of dystrophin-deficient mice with a secondary glycosylation defect

Data table header descriptions
ID_REF
VALUE RMA signal intensity

Data table
ID_REF VALUE
1415670_at 400.21045
1415671_at 1022.5736
1415672_at 752.034861
1415673_at 229.934223
1415674_a_at 312.859698
1415675_at 288.572184
1415676_a_at 3497.784506
1415677_at 356.056778
1415678_at 6495.075058
1415679_at 2135.208426
1415680_at 283.141226
1415681_at 448.776275
1415682_at 269.565572
1415683_at 660.980266
1415684_at 264.580512
1415685_at 210.308299
1415686_at 2405.999342
1415687_a_at 3630.722918
1415688_at 2349.944793
1415689_s_at 94.189594

Total number of rows: 45101

Table truncated, full table size 949 Kbytes.




Supplementary file Size Download File type/resource
GSM413160.CEL.gz 3.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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