Conpair: Concordance and contamination estimator for matched tumor-normal pairs

Bioinformatics

Volumn 32, Issue 20, 2016, Pages 3196-3198

  Bergmann, Ewa A ^a   Chen, Bo Juen ^a   Arora, Kanika ^a   Vacic, Vladimir ^a   Zody, Michael C ^a  

^a NEW YORK GENOME CENTER   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA;

ALGORITHM; COMPUTER SIMULATION; HIGH THROUGHPUT SEQUENCING; HUMAN; NEOPLASM; PATHOLOGY;

ALGORITHMS; COMPUTER SIMULATION; DNA, NEOPLASM; HIGH-THROUGHPUT NUCLEOTIDE SEQUENCING; HUMANS; NEOPLASMS;

EID: 84995483126     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btw389     Document Type: Article

References (7)

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3. Cibulskis, K., et al. (2013). Sensitive detection of somatic point mutations in impure and heterogeneous cancer samples. Nat. Biotechnol., 31, 213-219
4. Jun, G., et al. (2012). Detecting and estimating contamination of human DNA samples in sequencing and array-based genotype data. Am. J. Hum. Genet., 91, 839-848
5. Magi, A., et al. (2013). EXCAVATOR: detecting copy number variants from whole-exome sequencing data. Genome Biol., 14, R120
6. Saunders, C.T., et al. (2012). Strelka: accurate somatic small-variant calling from sequenced tumor-normal sample pairs. Bioinf. Oxf. Engl, 28, 1811-1817
7. Wilm, A., et al. (2012). LoFreq: a sequence-quality aware, ultra-sensitive variant caller for uncovering cell-population heterogeneity from high-Throughput sequencing datasets. Nucleic Acids Res., 40, 11189-11201