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Sample GSM90347 Query DataSets for GSM90347
Status Public on Jan 04, 2006
Title 1250 (HG-U95A)
Sample type RNA
 
Source name Primary Tumor
Organism Homo sapiens
Characteristics Age Diagnosis: 859, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:96
Extracted molecule total RNA
Label Biotin
Label protocol Standard Affymetrix protocol
 
Description Primary neuroblastoma tumor.
Data processing Statistical modeling of probe set behavior was conducted using Probe Profiler (Corimbia, Berkeley, CA) as described by the manufacturer. The software implements a model-based approach for data extraction from probe sets and weights probe pairs based on consistency of performance. Normalization to remove chip-to-chip variation is accomplished by subtracting the second percentile intensity value and dividing by the interquartile range (IQR). A quantitative expression score (e-score) is then calculated for each probe set.
 
Submission date Jan 03, 2006
Last update date Mar 16, 2009
Contact name Jayanti Jagannathan
E-mail(s) [email protected]
Phone 2674262286
Organization name Childrens Hospital of Philadelphia
Department Oncology
Street address 34th & Civic center blvd
City Philadelphia
State/province PA
ZIP/Postal code 19104
Country USA
 
Platform ID GPL8300
Series (1)
GSE3960 Classification of neuroblastoma by integrating gene expression pattern with regional alterations in DNA copy number
Relations
Alternative to GSM174449 (aCGH data from the same sample)

Data table header descriptions
ID_REF
VALUE Probe-Profiler -calculated Signal intensity

Data table
ID_REF VALUE
AFFX-MurIL2_at 15.6119
AFFX-MurIL10_at 28.2964
AFFX-MurIL4_at 19.8081
AFFX-MurFAS_at 20.8045
AFFX-BioB-5_at 116.651
AFFX-BioB-M_at 158.681
AFFX-BioB-3_at 163.523
AFFX-BioC-5_at 323.819
AFFX-BioC-3_at 325.619
AFFX-BioDn-5_at 385.791
AFFX-BioDn-3_at 1264.86
AFFX-CreX-5_at 2138.22
AFFX-CreX-3_at 2322.65
AFFX-BioB-5_st 138.407
AFFX-BioB-M_st 48.9813
AFFX-BioB-3_st -11.1827
AFFX-BioC-5_st 36.4065
AFFX-BioC-3_st 29.2883
AFFX-BioDn-5_st 210.505
AFFX-BioDn-3_st 69.4495

Total number of rows: 12625

Table truncated, full table size 212 Kbytes.




Supplementary file Size Download File type/resource
GSM90347.CEL.gz 2.7 Mb (ftp)(http) CEL

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