Copy number analysis of whole-genome data using BIC-seq2 and its application to detection of cancer susceptibility variants
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Title
Copy number analysis of whole-genome data using BIC-seq2 and its application to detection of cancer susceptibility variants
Authors
Keywords
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Journal
NUCLEIC ACIDS RESEARCH
Volume 44, Issue 13, Pages 6274-6286
Publisher
Oxford University Press (OUP)
Online
2016-06-04
DOI
10.1093/nar/gkw491
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- (2015) M. D. Buschman et al. CANCER RESEARCH
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- (2013) Ming-Hua Luo et al. HUMAN PATHOLOGY
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- (2013) Hiromasa Yamamoto et al. JNCI-Journal of the National Cancer Institute
- Pan-cancer patterns of somatic copy number alteration
- (2013) Travis I Zack et al. NATURE GENETICS
- Prognosis of metastatic gastric and gastroesophageal junction cancer by HER2 status: a European and USA International collaborative analysis
- (2012) Y. Y. Janjigian et al. ANNALS OF ONCOLOGY
- Overexpression of GOLPH3 Promotes Proliferation and Tumorigenicity in Breast Cancer via Suppression of the FOXO1 Transcription Factor
- (2012) Z. Zeng et al. CLINICAL CANCER RESEARCH
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- Improving detection of copy-number variation by simultaneous bias correction and read-depth segmentation
- (2012) Jin P. Szatkiewicz et al. NUCLEIC ACIDS RESEARCH
- CNVnator: An approach to discover, genotype, and characterize typical and atypical CNVs from family and population genome sequencing
- (2011) A. Abyzov et al. GENOME RESEARCH
- Mapping copy number variation by population-scale genome sequencing
- (2011) Ryan E. Mills et al. NATURE
- Comprehensive assessment of array-based platforms and calling algorithms for detection of copy number variants
- (2011) Dalila Pinto et al. NATURE BIOTECHNOLOGY
- Discovery and genotyping of genome structural polymorphism by sequencing on a population scale
- (2011) Robert E Handsaker et al. NATURE GENETICS
- ReadDepth: A Parallel R Package for Detecting Copy Number Alterations from Short Sequencing Reads
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- Copy number variation detection in whole-genome sequencing data using the Bayesian information criterion
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- Control-free calling of copy number alterations in deep-sequencing data using GC-content normalization
- (2010) Valentina Boeva et al. BIOINFORMATICS
- Germline copy number variation and cancer risk
- (2010) Roland P Kuiper et al. CURRENT OPINION IN GENETICS & DEVELOPMENT
- Germline copy number variations in BRCA1-associated ovarian cancer patients
- (2010) Kosuke Yoshihara et al. GENES CHROMOSOMES & CANCER
- Biases in Illumina transcriptome sequencing caused by random hexamer priming
- (2010) Kasper D. Hansen et al. NUCLEIC ACIDS RESEARCH
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- (2009) A. Chase et al. HAEMATOLOGICA
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- (2009) Sharon J. Diskin et al. NATURE
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- BreakDancer: an algorithm for high-resolution mapping of genomic structural variation
- (2009) Ken Chen et al. NATURE METHODS
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- Excessive genomic DNA copy number variation in the Li-Fraumeni cancer predisposition syndrome
- (2008) A. Shlien et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
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