Allele-specific copy number analysis of tumor samples with aneuploidy and tumor heterogeneity
| Autor: | Anders Isaksson, Magnus Sundström, Helgi Birgisson, Markus Rasmussen, Patrick Micke, Hanna Göransson Kultima, Johan Botling, Bengt Glimelius |
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| Jazyk: | angličtina |
| Rok vydání: | 2011 |
| Předmět: |
Gene Dosage
Copy number analysis Abnormal Karyotype Method Aneuploidy Bioinformatik och systembiologi Biology Polymorphism Single Nucleotide Sensitivity and Specificity Tumor heterogeneity Genetic Heterogeneity Cell Line Tumor Genomic Segment medicine Humans SNP Alleles Allele specific Oligonucleotide Array Sequence Analysis Genetics Bioinformatics and Systems Biology Computational Biology Cancer medicine.disease Human genetics Colonic Neoplasms Algorithms Software Genes Neoplasm |
| Zdroj: | Genome Biology |
| Popis: | We describe a bioinformatic tool, Tumor Aberration Prediction Suite (TAPS), for the identification of allele-specific copy numbers in tumor samples using data from Affymetrix SNP arrays. It includes detailed visualization of genomic segment characteristics and iterative pattern recognition for copy number identification, and does not require patient-matched normal samples. TAPS can be used to identify chromosomal aberrations with high sensitivity even when the proportion of tumor cells is as low as 30%. Analysis of cancer samples indicates that TAPS is well suited to investigate samples with aneuploidy and tumor heterogeneity, which is commonly found in many types of solid tumors. |
| Databáze: | OpenAIRE |
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