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Journal of Computational Biology : a Journal of Computational Molecular Cell Biology|February 20, 2026
Uncovering Epistatic Interactions in SARS-CoV-2 Evolution Through Hidden Markov ModelsAyotomiwa Ezekiel Adeniyi, Akshay Juyal, Pavel Skums, et al.
Medrxiv : the Preprint Server for Health Sciences|June 9, 2020
Global transmission network of SARS-CoV-2: from outbreak to pandemicPavel Skums, Alexander Kirpich, Pelin Icer Baykal, et al.
BMC Genomics|December 17, 2020
Using earth mover's distance for viral outbreak investigationsAndrew Melnyk, Sergey Knyazev, Fredrik Vannberg, et al.
BMC Bioinformatics|February 9, 2022
Primary case inference in viral outbreaks through analysis of intra-host variant populationJ Walker Gussler, David S Campo, Zoya Dimitrova, et al.
Plos One|December 7, 2020
Accurate spatiotemporal mapping of drug overdose deaths by machine learning of drug-related web-searchesDavid S Campo, Joseph W Gussler, Amanda Sue, et al.
Virus Evolution|January 28, 2021
Quantitative differences between intra-host HCV populations from persons with recently established and persistent infectionsPelin B Icer Baykal, James Lara, Yury Khudyakov, et al.
Journal of Computational Biology : a Journal of Computational Molecular Cell Biology|October 26, 2021
Scalable Reconstruction of SARS-CoV-2 Phylogeny with Recurrent MutationsDaniel Novikov, Sergey Knyazev, Mark Grinshpon, et al.
In Silico Biology|December 4, 2012
Reconstructing viral quasispecies from NGS amplicon readsNicholas Mancuso, Bassam Tork, Pavel Skums, et al.
BMC Bioinformatics|October 23, 2018
Fast estimation of genetic relatedness between members of heterogeneous populations of closely related genomic variantsViachaslau Tsyvina, David S Campo, Seth Sims, et al.
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