Physicochemical Correlation between Amino Acid Sites in Short Sequences under Selective Pressure. - David S. Campo; Zoya Dimitrova; Yuri Khudyakov (ISBRA, 2008)

Invited Keynote Talk: Integrative Viral Molecular Epidemiology: Hepatitis C Virus Modeling. - James Lara; Zoya Dimitrova; Yuri Khudyakov (ISBRA, 2008)

Artificial neural network for prediction of antigenic activity for a major conformational epitope in the hepatitis C virus NS3 protein. - James Lara; Robert M. Wohlhueter; Zoya Dimitrova; Yuri Khudyakov (Bioinform., 2008)

Network of coordinated substitutions in the Hepatitis B virus polymerase. - David S. Campo; Zoya Dimitrova; James Lara; Mike Purdy; Hong Thai; Sumathi Ramachandran; Lilia Ganova-Raeva; X. Zhai; Joseph C. Forbi; Chong-Gee Teo; Yuri Khudyakov (BIBM Workshops, 2011)

Assessments of intra- and inter-host diversity of hepatitis C virus using Next Generation Sequencing and Mass spectrometry. - Zoya Dimitrova; David S. Campo; Sumathi Ramachandran; Gilberto Vaughan; Lilia Ganova-Raeva; Yulin Lin; Joseph C. Forbi; Guo-liang Xia; Pavel Skums; Brian L. Pearlman; Yuri Khudyakov (BIBM Workshops, 2011)

Modelling differential interferon resistance of HCV quasispecies. - Pavel Skums; David S. Campo; Zoya Dimitrova; Gilberto Vaughan; Daryl T. Lau; Yuri Khudyakov (BIBM Workshops, 2011)

Efficient error correction for next-generation sequencing of viral amplicons. - Pavel Skums; Zoya Dimitrova; David S. Campo; Gilberto Vaughan; Livia Rossi; Joseph C. Forbi; Jonny Yokosawa; Alex Zelikovsky; Yuri Khudyakov (BMC Bioinform., 2012)

Coordinated evolution of the Hepatitis B Virus Polymerase. - David S. Campo; Zoya Dimitrova; James Lara; Mike Purdy; Hong Thai; Sumathi Ramachandran; Lilia Ganova-Raeva; X. Zhai; Joseph C. Forbi; Chong-Gee Teo; Yuri Khudyakov (Silico Biol., 2012)

Evaluation of viral heterogeneity using next-generation sequencing, end-point limiting-dilution and mass spectrometry. - Zoya Dimitrova; David S. Campo; Sumathi Ramachandran; Gilberto Vaughan; Lilia Ganova-Raeva; Yulin Lin; Joseph C. Forbi; Guo-liang Xia; Pavel Skums; Brian L. Pearlman; Yuri Khudyakov (Silico Biol., 2012)

Numerical detection, measuring and analysis of differential interferon resistance for individual HCV intra-host variants and its influence on the therapy response. - Pavel Skums; David S. Campo; Zoya Dimitrova; Gilberto Vaughan; Daryl T. Lau; Yuri Khudyakov (Silico Biol., 2012)

Mutational robustness of hepatitis C virus intra-host variants. - David S. Campo; Zoya Dimitrova; Pavel Skums; Yuri Khudyakov (ICCABS, 2013)

Computational analysis and modelling of intra-host adaptation of hepatitis C virus: The role of immune cross-reactivity of HCV quasispecies. - Pavel Skums; David S. Campo; Zoya Dimitrova; Leonid Bunimovich; Yuri Khudyakov (ICCABS, 2013)

Alignment of DNA Mass-Spectral Profiles Using Network Flows. - Pavel Skums; Olga Glebova; Alex Zelikovsky; Zoya Dimitrova; David Stiven Campo Rendon; Lilia Ganova-Raeva; Yuri Khudyakov (ISBRA, 2013)

New computational methods for assessing the genetic relatedness of close viral variants. - David S. Campo; Zoya Dimitrova; Guo-liang Xia; Pavel Skums; Lilia Ganova-Raeva; Yuri Khudyakov (ICCABS, 2014)

Detection of genetic relatedness between viral samples using EM-based clustering of next-generation sequencing data. - Pavel Skums; Alexander Artyomenko; Olga Glebova; Alex Zelikovsky; David S. Campo; Zoya Dimitrova; Yuri Khudyakov (ICCABS, 2014)

Algorithms for prediction of viral transmission using analysis of intra-host viral populations. - Pavel Skums; Olga Glebova; David S. Campo; Nana Li; Zoya Dimitrova; Seth Sims; Leonid Bunimovich; Alex Zelikovsky; Yury Khudyakov (ICCABS, 2015)

Computational framework for next-generation sequencing of heterogeneous viral populations using combinatorial pooling. - Pavel Skums; Alexander Artyomenko; Olga Glebova; Sumathi Ramachandran; Ion I. Mandoiu; David S. Campo; Zoya Dimitrova; Alex Zelikovsky; Yuri Khudyakov (Bioinform., 2015)

QUENTIN: reconstruction of disease transmissions from viral quasispecies genomic data. - Pavel Skums; Alex Zelikovsky; Rahul Singh; Walker Gussler; Zoya Dimitrova; Sergey Knyazev; Igor Mandric; Sumathi Ramachandran; David S. Campo; Deeptanshu Jha; Leonid Bunimovich; Elizabeth Costenbader; et al. (Bioinform., 2018)

Primary case inference in viral outbreaks through analysis of intra-host variant population. - Walker Gussler; David S. Campo; Zoya Dimitrova; Pavel Skums; Yury Khudyakov (BMC Bioinform., 2022)