Title |
Reconstruction of viral population structure from next-generation sequencing data using multicommodity flows
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Published in |
BMC Bioinformatics, June 2013
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DOI | 10.1186/1471-2105-14-s9-s2 |
Pubmed ID | |
Authors |
Pavel Skums, Nicholas Mancuso, Alexander Artyomenko, Bassam Tork, Ion Mandoiu, Yury Khudyakov, Alex Zelikovsky |
Abstract |
Highly mutable RNA viruses exist in infected hosts as heterogeneous populations of genetically close variants known as quasispecies. Next-generation sequencing (NGS) allows for analysing a large number of viral sequences from infected patients, presenting a novel opportunity for studying the structure of a viral population and understanding virus evolution, drug resistance and immune escape. Accurate reconstruction of genetic composition of intra-host viral populations involves assembling the NGS short reads into whole-genome sequences and estimating frequencies of individual viral variants. Although a few approaches were developed for this task, accurate reconstruction of quasispecies populations remains greatly unresolved. |
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Geographical breakdown
Country | Count | As % |
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Unknown | 1 | 100% |
Demographic breakdown
Type | Count | As % |
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Scientists | 1 | 100% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
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United States | 3 | 7% |
Brazil | 1 | 2% |
Unknown | 40 | 91% |
Demographic breakdown
Readers by professional status | Count | As % |
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Student > Ph. D. Student | 10 | 23% |
Researcher | 9 | 20% |
Student > Master | 7 | 16% |
Professor > Associate Professor | 6 | 14% |
Student > Doctoral Student | 2 | 5% |
Other | 6 | 14% |
Unknown | 4 | 9% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 16 | 36% |
Computer Science | 8 | 18% |
Environmental Science | 3 | 7% |
Biochemistry, Genetics and Molecular Biology | 3 | 7% |
Immunology and Microbiology | 2 | 5% |
Other | 5 | 11% |
Unknown | 7 | 16% |