Circular binary segmentation for the analysis of array-based DNA copy number data.
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Summary
A modification ofbinary segmentation is developed, which is called circular binary segmentation, to translate noisy intensity measurements into regions of equal copy number in DNA sequence copy number.
- Type
- article
- Published
- 2004-10-01
- Cited by
- 2,351
- References
- 26
- Access
- Open access
- OpenAlex
- https://openalex.org/W2133174470
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:5871867
Keywords
Copy number analysis, Copy-number variation, Segmentation, Genome, Computer science
References
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- Boundary Crossing Probabilities and Statistical Applications
- Estimating the number of change-points via Schwarz' criterion
- Normalization for cDNA microarray data: a robust composite method addressing single and multiple slide systematic variation.
- Representational oligonucleotide microarray analysis: a high-resolution method to detect genome copy number variation.
- Gene expression patterns and gene copy number changes in dermatofibrosarcoma protuberans.
- Controlling the false discovery rate: a practical and powerful approach to multiple testing
- Detecting gene copy number fluctuations in tumor cells by microarray analysis of genomic representations.
- CGH-Plotter: MATLAB toolbox for CGH-data analysis
- Determination of amplicon boundaries at 20q13.2 in tissue samples of human gastric adenocarcinomas by high‐resolution microarray comparative genomic hybridization
Cited by
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- Genome-wide aberrations in pancreatic adenocarcinoma.
- Allele-Specific Amplification in Cancer Revealed by SNP Array Analysis
- aCGH local copy number aberrations associated with overall copy number genomic instability in colorectal cancer: coordinate involvement of the regions including BCR and ABL.
- KIT and RAS signalling pathways in testicular germ cell tumours: new data and a review of the literature.
- MSB: a mean-shift-based approach for the analysis of structural variation in the genome.
- Computational methods for identification of recurrent copy number alteration patterns by array CGH
- Screening for genomic rearrangements in BRCA1 and BRCA2 genes in Czech high-risk breast/ovarian cancer patients: high proportion of population specific alterations in BRCA1 gene
- Genetic alterations targeting lymphoid development in acute lymphoblastic leukemia.
- Integrative Genome Comparison of Primary and Metastatic Melanomas
- R-Gada: a fast and flexible pipeline for copy number analysis in association studies
- LDOC1 mRNA is differentially expressed in chronic lymphocytic leukemia and predicts overall survival in untreated patients.
- BAP1 loss defines a new class of renal cell carcinoma
- Simultaneous Discovery of Rare and Common Segment Variants
- Deconvolving tumor purity and ploidy by integrating copy number alterations and loss of heterozygosity
- Genomic landscape of metastatic colorectal cancer
- ViVar: A Comprehensive Platform for the Analysis and Visualization of Structural Genomic Variation
- Detection, characterization and inhibition of FGFR-TACC fusions in IDH wild type glioma
- Overlapping DNA Methylation Dynamics in Mouse Intestinal Cell Differentiation and Early Stages of Malignant Progression
- The UBC-40 Urothelial Bladder Cancer cell line index: a genomic resource for functional studies
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