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Sample GSM482086 Query DataSets for GSM482086
Status Public on May 01, 2013
Title CNS PNET 09
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 ( was used for t-tests.
Submission date Dec 09, 2009
Last update date May 01, 2013
Contact name Hazel Anne Rogers
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
VALUE RMA signal intensity

Data table
AFFX-BioB-5_at 6.807873
AFFX-BioB-M_at 7.207222
AFFX-BioB-3_at 6.658395
AFFX-BioC-5_at 8.328167
AFFX-BioC-3_at 8.529406
AFFX-BioDn-5_at 9.280085
AFFX-BioDn-3_at 10.99911
AFFX-CreX-5_at 12.37298
AFFX-CreX-3_at 12.84922
AFFX-DapX-5_at 3.090432
AFFX-DapX-M_at 2.810392
AFFX-DapX-3_at 2.675173
AFFX-LysX-5_at 2.683727
AFFX-LysX-M_at 2.837233
AFFX-LysX-3_at 3.137703
AFFX-PheX-5_at 3.164002
AFFX-PheX-M_at 2.722409
AFFX-PheX-3_at 4.768963
AFFX-ThrX-5_at 3.396375
AFFX-ThrX-M_at 2.548782

Total number of rows: 54675

Table truncated, full table size 1051 Kbytes.

Supplementary file Size Download File type/resource
GSM482086.CEL.gz 4.7 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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