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| Status |
Public on Dec 01, 2017 |
| Title |
Brain-Tumor-W4-2-1 |
| Sample type |
genomic |
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| Source name |
Glioblastoma
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| Organism |
Homo sapiens |
| Characteristics |
gender: female
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| Treatment protocol |
none
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| Growth protocol |
none
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| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNA was extracted from tumor tissues by using ChargeSwitch gDNA mini tissue kit (Life Tech, CA) per company protocol. Measurement of quality and quantity of genomic DNA was carried out by using Nanodrop ND-1000.
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| Label |
biotin
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| Label protocol |
DNA labeling, hybridization (Genome-Wide Human SNP Array 6.0, Affymetrix®), and data extraction were performed by the Genome Technology Access Center, Washington University School of Medicine, St. Louis, MO.
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| Hybridization protocol |
As per manufacturer (Affymetrix)
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| Scan protocol |
As per manufacturer (Affymetrix)
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| Data processing |
CHP files were created from CEL file intensities using the Affymetrix Genotyping Console using the BIRDSEED V2 algorithm with default settings. CHP files were imported into Partek Genomics Suite v6.6. Genotype Call (SNP call): AA, AB, BB, or NC (No Call).
Call Codes:Genotype Call (SNP call): AA, AB, BB, NC, and NoCall; Confidence:confidence level; Forced Call Codes:Genotype Call (SNP call): AA, AB, BB, NC, and NoCall; Signal A:Signal intensity for Allele A; Signal B:Signal intensity for Allele B; Forward Strand Base Calls:Genotype Call (A,T,C,G) Forced Forward Strand Base Calls:Genotype Call (A,T,C,G)
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| Submission date |
Nov 30, 2017 |
| Last update date |
Dec 01, 2017 |
| Contact name |
Ralph B. Puchalski |
| E-mail(s) |
[email protected]
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| Organization name |
Swedish Neuroscience Institute
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| Street address |
550 17th Ave., Suite 570
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| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98122 |
| Country |
USA |
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| Platform ID |
GPL6801 |
| Series (2) |
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| Supplementary data files not provided |
| Processed data are available on Series record |
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