NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM482085 Query DataSets for GSM482085
Status Public on May 01, 2013
Title CNS PNET 08
Sample type RNA
 
Source name Tumor material, snap frozen during surgery
Organism Homo sapiens
Characteristics tumour type: CNS PNET
Growth protocol Tumor material was removed during surgery then snap frozen
Extracted molecule total RNA
Extraction protocol RNA was extracted using the mirVana miRNA isolation kit (Ambion)
Label biotin
Label protocol Biotinylated cRNA was prepared from 5 mg RNA using the Affymetrix HT IVT labeling method (one cycle)
 
Hybridization protocol Labeled RNA was hybridized for 16 hours at 45 oC on the U133 plus 2 array. GeneChips were washed and stained in the fluidics station 450.
Scan protocol GeneChips were scanned using the Affymetrix GeneChip scanner 8000 with autoloader
Description no additional information
Data processing Raw data was analysed using Expression console. RMA was used to generate data for analysis. Processed data was analysed in Spotfire DecisionSite for Functional Genomics (TIBCO Software Inc.) for hierarchical clustering and priniciple component analysis. BRB Array Tools Software ver 3.7 (http://linus.nci.nih.gov/BRB-ArrayTools.html) was used for t-tests.
 
Submission date Dec 09, 2009
Last update date May 01, 2013
Contact name Hazel Anne Rogers
E-mail(s) hazel.rogers@nottingham.ac.uk
Organization name University of Nottingham
Department Clinical Sciences
Lab D30
Street address Medical School
City Nottingham
ZIP/Postal code NG7 2UH
Country United Kingdom
 
Platform ID GPL570
Series (1)
GSE19404 Gene expression analysis of primitive neuroectodermal tumors

Data table header descriptions
ID_REF
VALUE RMA signal intensity

Data table
ID_REF VALUE
AFFX-BioB-5_at 6.580329
AFFX-BioB-M_at 7.185047
AFFX-BioB-3_at 6.612154
AFFX-BioC-5_at 8.198486
AFFX-BioC-3_at 8.461965
AFFX-BioDn-5_at 9.215067
AFFX-BioDn-3_at 10.8378
AFFX-CreX-5_at 12.2465
AFFX-CreX-3_at 12.73525
AFFX-DapX-5_at 2.916901
AFFX-DapX-M_at 2.712411
AFFX-DapX-3_at 2.860264
AFFX-LysX-5_at 2.827064
AFFX-LysX-M_at 2.885266
AFFX-LysX-3_at 3.07445
AFFX-PheX-5_at 2.785795
AFFX-PheX-M_at 2.844136
AFFX-PheX-3_at 4.49099
AFFX-ThrX-5_at 3.320335
AFFX-ThrX-M_at 2.682927

Total number of rows: 54675

Table truncated, full table size 1052 Kbytes.




Supplementary file Size Download File type/resource
GSM482085.CEL.gz 4.7 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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