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Status
Public on Jan 04, 2006
Title
1156 (HG-U95A)
Sample type
RNA
Source name
Primary Tumor
Organism
Homo sapiens Characteristics
Age Diagnosis: 1004, INSS Stage:3, MYCN:Not Amplified, 1p36 LOH:No LOH, 11q23 LOH:LOH, Unb11qLOH:No Unbalanced LOH, 17q gain:No Unbalanced Gain, Tumor %:89
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
GSM174461 (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
12.8309
AFFX-MurIL10_at
16.5109
AFFX-MurIL4_at
2.33025
AFFX-MurFAS_at
12.6372
AFFX-BioB-5_at
146.389
AFFX-BioB-M_at
181.267
AFFX-BioB-3_at
174.418
AFFX-BioC-5_at
383.322
AFFX-BioC-3_at
347.68
AFFX-BioDn-5_at
415.097
AFFX-BioDn-3_at
1339.92
AFFX-CreX-5_at
2863.49
AFFX-CreX-3_at
2804.08
AFFX-BioB-5_st
134.781
AFFX-BioB-M_st
30.8062
AFFX-BioB-3_st
-11.1335
AFFX-BioC-5_st
75.0769
AFFX-BioC-3_st
39.5059
AFFX-BioDn-5_st
169.629
AFFX-BioDn-3_st
64.7942
12625 212 Kbytes .Supplementary file Size Download File type/resource GSM90371.CEL.gz
2.7 Mb
(ftp) (http) CEL
