BACOM2.0 facilitates absolute normalization and quantification of somatic copy number alterations in heterogeneous tumor
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Summary
The BACOM2.0 method with enhanced accuracy and functionality to normalize copy number signals, detect deletion types, estimate tumor purity, quantify true copy numbers and calculate average-ploidy value is described.
- Type
- article
- Published
- 2013-10-29
- Cited by
- 7
- References
- 43
- Access
- Open access
- OpenAlex
- https://openalex.org/W1949334915
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:1209087
Keywords
Normalization (sociology), Computer science, Copy-number variation, Somatic cell, Confounding
References
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- Tumor–stroma ratio in the primary tumor is a prognostic factor in early breast cancer patients, especially in triple-negative carcinoma patients
- Orthogonal Information Structures: a Model to Evaluate the Information Provided by a Second Opinion
- Memory, Visual Discrimination Performance, and the Human Hippocampus
- High-resolution mapping of copy-number alterations with massively parallel sequencing
- Genomic copy number determination in cancer cells from single nucleotide polymorphism microarrays based on quantitative genotyping corrected for aneuploidy.
- AISAIC: a software suite for accurate identification of significant aberrations in cancers
- PTEN loss compromises homologous recombination repair in astrocytes: implications for GBM therapy with temozolomide or PARP inhibitors
- The proportion of tumor-stroma as a strong prognosticator for stage II and III colon cancer patients: validation in the VICTOR trial.
- A statistical approach for detecting genomic aberrations in heterogeneous tumor samples from single nucleotide polymorphism genotyping data
- Using high-density DNA methylation arrays to profile copy number alterations
- Magnetic resonance image analysis by information theoretic criteria and stochastic site models
- Integrated Genomic Analyses of Ovarian Carcinoma
Cited by
- Cell subpopulation deconvolution reveals breast cancer heterogeneity based on DNA methylation signature
- Computational deconvolution of transcriptomics data from mixed cell populations
- DBS: a fast and informative segmentation algorithm for DNA copy number analysis
- Minimum Error Calibration and Normalization for Genomic Copy Number Analysis
- Minimum error calibration and normalization for genomic copy number analysis.
- Characterization of Mutational Status, Spheroid Formation, and Drug Response of a New Genomically-Stable Human Ovarian Clear Cell Carcinoma Cell Line, 105C
- CNAdjust: enhancing CNA calling accuracy through systematic baseline adjustment
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