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- W2395113119 abstract "Abstract As a result of a high rate of mutations and recombination events, an RNA-virus exists as a heterogeneous “swarm” of mutant variants. The long read length offered by single-molecule sequencing technologies allows each mutant variant to be sequenced in a single pass. However, high error rate limits the ability to reconstruct heterogeneous viral population composed of rare, related mutant variants. In this paper, we present 2SNV, a method able to tolerate the high error-rate of the single-molecule protocol and reconstruct mutant variants. 2SNV uses linkage between single nucleotide variations to efficiently distinguish them from read errors. To benchmark the sensitivity of 2SNV, we performed a single-molecule sequencing experiment on a sample containing a titrated level of known viral mutant variants. Our method is able to accurately reconstruct clone with frequency of 0.2% and distinguish clones that differed in only two nucleotides distantly located on the genome. 2SNV outperforms existing methods for full-length viral mutant reconstruction. The open source implementation of 2SNV is freely available for download at http://alan.cs.gsu.edu/NGS/?q=content/2snv" @default.
- W2395113119 created "2016-06-24" @default.
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- W2395113119 date "2016-01-11" @default.
- W2395113119 modified "2023-10-18" @default.
- W2395113119 title "Long single-molecule reads can resolve the complexity of the Influenza virus composed of rare, closely related mutant variants" @default.
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- W2395113119 doi "https://doi.org/10.1101/036392" @default.
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