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Status
Public on Jan 04, 2006
Title
1258 (HG-U95A)
Sample type
RNA
Source name
Primary Tumor
Organism
Homo sapiens Characteristics
Age Diagnosis: 632, INSS Stage:3, 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
GSM174415 (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
33.7722
AFFX-MurIL10_at
50.8696
AFFX-MurIL4_at
53.878
AFFX-MurFAS_at
4.80022
AFFX-BioB-5_at
63.8328
AFFX-BioB-M_at
69.0151
AFFX-BioB-3_at
82.6345
AFFX-BioC-5_at
202.832
AFFX-BioC-3_at
171.927
AFFX-BioDn-5_at
272.689
AFFX-BioDn-3_at
902.35
AFFX-CreX-5_at
1695.37
AFFX-CreX-3_at
1539.17
AFFX-BioB-5_st
130.312
AFFX-BioB-M_st
17.3184
AFFX-BioB-3_st
-48.1289
AFFX-BioC-5_st
-30.0898
AFFX-BioC-3_st
39.4824
AFFX-BioDn-5_st
115.768
AFFX-BioDn-3_st
56.4826
12625 212 Kbytes .Supplementary file Size Download File type/resource GSM90380.CEL.gz
2.9 Mb
(ftp) (http) CEL
