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Sample GSM482098 Query DataSets for GSM482098
Status Public on May 01, 2013
Title Fetal Brain
Sample type RNA
Source name Commercial fetal brain RNA sample (Clontech)
Organism Homo sapiens
Characteristics tumour type: Normal fetal brain
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 6.360541
AFFX-BioB-M_at 6.858794
AFFX-BioB-3_at 6.133269
AFFX-BioC-5_at 7.976876
AFFX-BioC-3_at 8.184543
AFFX-BioDn-5_at 9.157457
AFFX-BioDn-3_at 10.55104
AFFX-CreX-5_at 12.12711
AFFX-CreX-3_at 12.58511
AFFX-DapX-5_at 3.262535
AFFX-DapX-M_at 2.696751
AFFX-DapX-3_at 2.629023
AFFX-LysX-5_at 2.652598
AFFX-LysX-M_at 3.064655
AFFX-LysX-3_at 3.072725
AFFX-PheX-5_at 2.89578
AFFX-PheX-M_at 2.798644
AFFX-PheX-3_at 4.635748
AFFX-ThrX-5_at 3.301817
AFFX-ThrX-M_at 2.502504

Total number of rows: 54675

Table truncated, full table size 1052 Kbytes.

Supplementary file Size Download File type/resource
GSM482098.CEL.gz 4.8 Mb (ftp)(http) CEL
Raw data provided as supplementary file
Processed data included within Sample table

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