title: Monovar: single-nucleotide variant detection in single cells.
abstract: Current variant callers are not suitable for single-cell DNA sequencing, as they do not account for allelic dropout, false-positive errors and coverage nonuniformity. We developed Monovar (https://bitbucket.org/hamimzafar/monovar), a statistical method for detecting and genotyping single-nucleotide variants in single-cell data. Monovar exhibited superior performance over standard algorithms on benchmarks and in identifying driver mutations and delineating clonal substructure in three different human tumor data sets.
authors.affiliation: Department of Computer Science, Rice University, Houston, Texas, USA.|Department of Bioinformatics and Computational Biology, the University of Texas M.D. Anderson Cancer Center, Houston, Texas, USA.
authors.forename: Hamim
authors.initials: H
authors.lastname: Zafar
authors.affiliation: Department of Genetics, the University of Texas M.D. Anderson Cancer Center, Houston, Texas, USA.
authors.forename: Yong
authors.initials: Y
authors.lastname: Wang
authors.affiliation: Department of Computer Science, Rice University, Houston, Texas, USA.
authors.forename: Luay
authors.initials: L
authors.lastname: Nakhleh
authors.affiliation: Department of Bioinformatics and Computational Biology, the University of Texas M.D. Anderson Cancer Center, Houston, Texas, USA.|Department of Genetics, the University of Texas M.D. Anderson Cancer Center, Houston, Texas, USA.
authors.forename: Nicholas
authors.initials: N
authors.lastname: Navin
authors.affiliation: Department of Bioinformatics and Computational Biology, the University of Texas M.D. Anderson Cancer Center, Houston, Texas, USA.
authors.forename: Ken
authors.initials: K
authors.lastname: Chen
mesh_terms: D000465:Algorithms; D019985:Benchmarking; D002460:Cell Line; D059472:Exome / Q000235:genetics; D059014:High-Throughput Nucleotide Sequencing / Q000379:methods*; D006801:Humans; D020641:Polymorphism, Single Nucleotide; D012680:Sensitivity and Specificity; D017422:Sequence Analysis, DNA / Q000379:methods* / Q000706:statistics & numerical data; D059010:Single-Cell Analysis / Q000379:methods* / Q000706:statistics & numerical data