GEO help: Mouse over screen elements for information.
Status
Public on Jan 04, 2006
Title
1013 (HG-U95A)
Sample type
RNA
Source name
Primary Tumor
Organism
Homo sapiens Characteristics
Age Diagnosis: 488, INSS Stage:1, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:No LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:100
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
GSM174391 (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
17.4684
AFFX-MurIL10_at
24.9141
AFFX-MurIL4_at
7.15045
AFFX-MurFAS_at
12.3279
AFFX-BioB-5_at
193.189
AFFX-BioB-M_at
238.19
AFFX-BioB-3_at
211.992
AFFX-BioC-5_at
454.403
AFFX-BioC-3_at
458.006
AFFX-BioDn-5_at
533.15
AFFX-BioDn-3_at
1833.56
AFFX-CreX-5_at
3377.63
AFFX-CreX-3_at
3446.69
AFFX-BioB-5_st
97.293
AFFX-BioB-M_st
79.8364
AFFX-BioB-3_st
0.812358
AFFX-BioC-5_st
11.9427
AFFX-BioC-3_st
29.12
AFFX-BioDn-5_st
303.204
AFFX-BioDn-3_st
105.934
12625 211 Kbytes .Supplementary file Size Download File type/resource GSM90312.CEL.gz
2.6 Mb
(ftp) (http) CEL
