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Sample GSM482093 Query DataSets for GSM482093
Status Public on May 01, 2013
Title MB 04
Sample type RNA
Source name Tumor material, snap frozen during surgery
Organism Homo sapiens
Characteristics tumour type: Medulloblastoma
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 8.638956
AFFX-BioB-M_at 9.236595
AFFX-BioB-3_at 8.490345
AFFX-BioC-5_at 8.998634
AFFX-BioC-3_at 9.376459
AFFX-BioDn-5_at 11.20365
AFFX-BioDn-3_at 12.41781
AFFX-CreX-5_at 13.09825
AFFX-CreX-3_at 13.46154
AFFX-DapX-5_at 3.809984
AFFX-DapX-M_at 5.752892
AFFX-DapX-3_at 7.312419
AFFX-LysX-5_at 2.943709
AFFX-LysX-M_at 3.337774
AFFX-LysX-3_at 4.435206
AFFX-PheX-5_at 3.070377
AFFX-PheX-M_at 3.770873
AFFX-PheX-3_at 6.147757
AFFX-ThrX-5_at 3.819059
AFFX-ThrX-M_at 3.01068

Total number of rows: 54675

Table truncated, full table size 1051 Kbytes.

Supplementary file Size Download File type/resource
GSM482093.CEL.gz 3.9 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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