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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