title: AutoCSA, an algorithm for high throughput DNA sequence variant detection in cancer genomes.
abstract: The undertaking of large-scale DNA sequencing screens for somatic variants in human cancers requires accurate and rapid processing of traces for variants. Due to their often aneuploid nature and admixed normal tissue, heterozygous variants found in primary cancers are often subtle and difficult to detect. To address these issues, we have developed a mutation detection algorithm, AutoCSA, specifically optimized for the high throughput screening of cancer samples.
  
  
  BACKGROUND
  http://www.sanger.ac.uk/genetics/CGP/Software/AutoCSA.
authors.affiliation: Cancer Genome Project, Wellcome Trust Sanger Institute, Genome Campus, Hinxton, Cambridge, CB10 1SA, UK.
authors.forename: E
authors.initials: E
authors.lastname: Dicks
authors.forename: J W
authors.initials: JW
authors.lastname: Teague
authors.forename: P
authors.initials: P
authors.lastname: Stephens
authors.forename: K
authors.initials: K
authors.lastname: Raine
authors.forename: A
authors.initials: A
authors.lastname: Yates
authors.forename: C
authors.initials: C
authors.lastname: Mattocks
authors.forename: P
authors.initials: P
authors.lastname: Tarpey
authors.forename: A
authors.initials: A
authors.lastname: Butler
authors.forename: A
authors.initials: A
authors.lastname: Menzies
authors.forename: D
authors.initials: D
authors.lastname: Richardson
authors.forename: A
authors.initials: A
authors.lastname: Jenkinson
authors.forename: H
authors.initials: H
authors.lastname: Davies
authors.forename: S
authors.initials: S
authors.lastname: Edkins
authors.forename: S
authors.initials: S
authors.lastname: Forbes
authors.forename: K
authors.initials: K
authors.lastname: Gray
authors.forename: C
authors.initials: C
authors.lastname: Greenman
authors.forename: R
authors.initials: R
authors.lastname: Shepherd
authors.forename: M R
authors.initials: MR
authors.lastname: Stratton
authors.forename: P A
authors.initials: PA
authors.lastname: Futreal
authors.forename: R
authors.initials: R
authors.lastname: Wooster
mesh_terms: D000465:Algorithms; D001483:Base Sequence; D002874:Chromosome Mapping / Q000379:methods*; D004252:DNA Mutational Analysis / Q000379:methods*; D004273:DNA, Neoplasm / Q000235:genetics*; D020022:Genetic Predisposition to Disease / Q000235:genetics; D005820:Genetic Testing / Q000379:methods*; D014644:Genetic Variation / Q000235:genetics; D006801:Humans; D008969:Molecular Sequence Data; D009369:Neoplasms / Q000175:diagnosis* / Q000235:genetics*; D012984:Software
chemical_list: D004273:DNA, Neoplasm