GEO help: Mouse over screen elements for information.
Status
Public on Jan 04, 2006
Title
417 (HG-U95A)
Sample type
RNA
Source name
Primary Tumor
Organism
Homo sapiens Characteristics
Age Diagnosis: 215, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:98
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
GSM174397 (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
16.6865
AFFX-MurIL10_at
21.9847
AFFX-MurIL4_at
3.15872
AFFX-MurFAS_at
8.871
AFFX-BioB-5_at
165.433
AFFX-BioB-M_at
206.587
AFFX-BioB-3_at
222.714
AFFX-BioC-5_at
448.988
AFFX-BioC-3_at
495.634
AFFX-BioDn-5_at
564.445
AFFX-BioDn-3_at
1360.78
AFFX-CreX-5_at
3471.45
AFFX-CreX-3_at
3182.57
AFFX-BioB-5_st
125.015
AFFX-BioB-M_st
47.8181
AFFX-BioB-3_st
-16.5571
AFFX-BioC-5_st
56.6645
AFFX-BioC-3_st
32.5273
AFFX-BioDn-5_st
171.585
AFFX-BioDn-3_st
72.6343
12625 212 Kbytes .Supplementary file Size Download File type/resource GSM90339.CEL.gz
2.7 Mb
(ftp) (http) CEL
