Last data update: Feb 24, 2021. (Total: 3528 publications since 2011)
|Query Trace: all>>Yury Khudyakov[CDC Author]|
| Quantitative differences between intra-host HCV populations from persons with recently established and persistent infections.
Pelin B Icer Baykal, James Lara, Yury Khudyakov, Alex Zelikovsky, and Pavel Skums
Virus evolution 2021 Jan 7(1) veaa103
| Convex hulls in hamming space enable efficient search for similarity and clustering of genomic sequences.
David S Campo, and Yury Khudyakov
BMC bioinformatics 2020 Dec 21(Suppl 18) 482
| Accurate spatiotemporal mapping of drug overdose deaths by machine learning of drug-related web-searches.
David S Campo, Joseph W Gussler, Amanda Sue, Pavel Skums, and Yury Khudyakov
PloS one 2020 15(12) e0243622
| Complex genetic encoding of the hepatitis B virus on-drug persistence.
Hong Thai, James Lara, Xiaojun Xu, Kathryn Kitrinos, Anuj Gaggar, Henry Lik Yuen Chan, Guo-Liang Xia, Lilia Ganova-Raeva, and Yury Khudyakov
Scientific reports 2020 Sep 10(1) 15574
| Machine learning can accelerate discovery and application of cyber-molecular cancer diagnostics.
David S Campo, and Yury Khudyakov
Journal of medical artificial intelligence 2020 Mar 3(7)
| Entropy of mitochondrial DNA circulating in blood is associated with hepatocellular carcinoma.
David S Campo, Vishal Nayak, Ganesh Srinivasamoorthy, and Yury Khudyakov
BMC medical genomics 2019 Jun 12(Suppl 4) 74
| HCV transmission in high-risk communities in Bulgaria.
Lilia Ganova-Raeva, Zoya Dimitrova, Ivailo Alexiev, Lili Punkova, Amanda Sue, Guo-Liang Xia, Anna Gancheva, Reneta Dimitrova, Asya Kostadinova, Elitsa Golkocheva-Markova, and Yury Khudyakov
PloS one 2019 14(3) e0212350
| A large HCV transmission network enabled a fast-growing HIV outbreak in rural Indiana, 2015.
Sumathi Ramachandran, Hong Thai, Joseph C Forbi, Romeo Regi Galang, Zoya Dimitrova, Guo-Liang Xia, Yulin Lin, Lili T Punkova, Pamela R Pontones, Jessica Gentry, Sara J Blosser, Judith Lovchik, William M Switzer, Eyasu Teshale, Philip Peters, John Ward, Yury Khudyakov, and
EBioMedicine 2018 Nov
| Automated quality control for a molecular surveillance system.
Seth Sims, Atkinson G Longmire, David S Campo, Sumathi Ramachandran, Magdalena Medrzycki, Lilia Ganova-Raeva, Yulin Lin, Amanda Sue, Hong Thai, Alexander Zelikovsky, and Yury Khudyakov
BMC bioinformatics 2018 Oct (Suppl 11) 358
| Fast estimation of genetic relatedness between members of heterogeneous populations of closely related genomic variants.
Viachaslau Tsyvina, David S Campo, Seth Sims, Alex Zelikovsky, Yury Khudyakov, and Pavel Skums
BMC bioinformatics 2018 Oct (Suppl 11) 360
| HCV adaptation to HIV coinfection.
James Lara, Mahder A Teka, Seth Sims, Guo-Liang Xia, Sumathi Ramachandran, and Yury Khudyakov
Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2018 Nov 65216-225
| Reactivation of a Vaccine Escape Hepatitis B Virus Mutant in a Cambodian Patient During Anti-Hepatitis C Virus Therapy.
Dahlene N Fusco, Lilia Ganova-Raeva, Yury Khudyakov, Lili Punkova, Aisha Mohamed, Scarlett Se Yun Cheon, Prapti Koirala, Karin L Andersson, Gonzague Jourdain, Camille Sureau, Raymond T Chung, and Georg Lauer
Frontiers in medicine 2018 597
| 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 Campo, Deeptanshu Jha, Leonid Bunimovich, Elizabeth Costenbader, Connie Sexton, Siobhan O'Connor, Guo-Liang Xia, and Yury Khudyakov
Bioinformatics (Oxford, England) 2018 Jan (1) 163-170
| Inference of genetic relatedness between viral quasispecies from sequencing data.
Olga Glebova, Sergey Knyazev, Andrew Melnyk, Alexander Artyomenko, Yury Khudyakov, Alex Zelikovsky, and Pavel Skums
BMC genomics 2017 Dec (Suppl 10) 918
| GHOST: global hepatitis outbreak and surveillance technology.
Atkinson G Longmire, Seth Sims, Inna Rytsareva, David S Campo, Pavel Skums, Zoya Dimitrova, Sumathi Ramachandran, Magdalena Medrzycki, Hong Thai, Lilia Ganova-Raeva, Yulin Lin, Lili T Punkova, Amanda Sue, Massimo Mirabito, Silver Wang, Robin Tracy, Victor Bolet, Thom Sukalac, Chris Lynberg, and Yury Khudyakov
BMC genomics 2017 Dec (Suppl 10) 916
| Transmissibility of intra-host hepatitis C virus variants.
David S Campo, June Zhang, Sumathi Ramachandran, and Yury Khudyakov
BMC genomics 2017 Dec (Suppl 10) 881
| Identification of recent cases of hepatitis C virus infection using physical-chemical properties of hypervariable region 1 and a radial basis function neural network classifier.
James Lara, Mahder Teka, and Yury Khudyakov
BMC genomics 2017 Dec (Suppl 10) 880
| Efficient detection of viral transmissions with Next-Generation Sequencing data.
Inna Rytsareva, David S Campo, Yueli Zheng, Seth Sims, Sharma V Thankachan, Cansu Tetik, Jain Chirag, Sriram P Chockalingam, Amanda Sue, Srinivas Aluru, and Yury Khudyakov
BMC genomics 2017 May (Suppl 4) 372
| Increased Mitochondrial Genetic Diversity in Persons Infected With Hepatitis C Virus.
David S Campo, Ha-Jung Roh, Brian L Pearlman, Daniel S Fierer, Sumathi Ramachandran, Gilberto Vaughan, Andrew Hinds, Zoya Dimitrova, Pavel Skums, and Yury Khudyakov
Cellular and molecular gastroenterology and hepatology 2016 Sep (5) 676-684
| Modeling the functional state of the reverse transcriptase of hepatitis B virus and its application to probing drug-protein interaction.
Xiaojun Xu, Hong Thai, Kathryn M Kitrinos, Guoliang Xia, Anuj Gaggar, Matthew Paulson, Lilia Ganova-Raeva, Yury Khudyakov, and James Lara
BMC bioinformatics 2016 17 Suppl 8280
| HIV Infection Linked to Injection Use of Oxymorphone in Indiana, 2014-2015.
Philip J Peters, Pamela Pontones, Karen W Hoover, Monita R Patel, Romeo R Galang, Jessica Shields, Sara J Blosser, Michael W Spiller, Brittany Combs, William M Switzer, Caitlin Conrad, Jessica Gentry, Yury Khudyakov, Dorothy Waterhouse, S Michele Owen, Erika Chapman, Jeremy C Roseberry, Veronica McCants, Paul J Weidle, Dita Broz, Taraz Samandari, Jonathan Mermin, Jennifer Walthall, John T Brooks, Joan M Duwve, and
The New England journal of medicine 2016 Jul 375(3) 229-39
| The spread of hepatitis C virus genotype 1a in North America: a retrospective phylogenetic study.
Jeffrey B Joy, Rosemary M McCloskey, Thuy Nguyen, Richard H Liang, Yury Khudyakov, Andrea Olmstead, Mel Krajden, John W Ward, P Richard Harrigan, Julio S G Montaner, and Art F Y Poon
The Lancet. Infectious diseases 2016 Mar
| Accurate genetic detection of hepatitis C virus transmissions in outbreak settings.
David S Campo, Guo-Liang Xia, Zoya Dimitrova, Yulin Lin, Joseph C Forbi, Lilia Ganova-Raeva, Lili Punkova, Sumathi Ramachandran, Hong Thai, Pavel Skums, Seth Sims, Inna Rytsareva, Gilberto Vaughan, Ha-Jung Roh, Michael A Purdy, Amanda Sue, and Yury Khudyakov
The Journal of infectious diseases 2015 Nov
| Cryptic Hepatitis B and E in Patients With Acute Hepatitis of Unknown Etiology.
Lilia Ganova-Raeva, Lili Punkova, David S Campo, Zoya Dimitrova, Pavel Skums, Nga H Vu, Do T Dat, Harry R Dalton, and Yury Khudyakov
J. Infect. Dis. 2015 Jun 8.
| Antigenic cooperation among intrahost HCV variants organized into a complex network of cross-immunoreactivity.
Pavel Skums, Leonid Bunimovich, and Yury Khudyakov
Proc. Natl. Acad. Sci. U.S.A. 2015 May 4.
| A molecular phylogenetics-based approach for identifying recent hepatitis C virus transmission events.
Andrea D Olmstead, Jeffrey B Joy, Vincent Montoya, Iris Luo, Art F Y Poon, Brendan Jacka, François Lamoury, Tanya Applegate, Julio Montaner, Yury Khudyakov, Jason Grebely, Darrel Cook, P Richard Harrigan, and Mel Krajden
Infect. Genet. Evol. 2015 Jul 33101-9
| Outbreak of hepatitis C virus infection associated with narcotics diversion by an hepatitis C virus-infected surgical technician.
Amy E Warner, Melissa K Schaefer, Priti R Patel, Jan Drobeniuc, Guoliang Xia, Yulin Lin, Yury Khudyakov, Candace W Vonderwahl, Lisa Miller, and Nicola D Thompson
American journal of infection control 2015 Jan (1) 53-8
| Computational framework for next-generation sequencing of heterogeneous viral populations using combinatorial pooling.
Pavel Skums, Alexander Artyomenko, Olga Glebova, Sumathi Ramachandran, Ion Mandoiu, David S Campo, Zoya Dimitrova, Alex Zelikovsky, and Yury Khudyakov
Bioinformatics 2015 Mar 1. (5) 682-90
| Next-generation sequencing reveals large connected networks of intra-host HCV variants.
David S Campo, Zoya Dimitrova, Lilian Yamasaki, Pavel Skums, Daryl Ty Lau, Gilberto Vaughan, Joseph C Forbi, Chong-Gee Teo, and Yury Khudyakov
BMC Genomics 2014 15 Suppl 5S4
| Reconstruction of viral population structure from next-generation sequencing data using multicommodity flows.
Pavel Skums, Nicholas Mancuso, Alexander Artyomenko, Bassam Tork, Ion Mandoiu, Yury Khudyakov, and Alex Zelikovsky
BMC bioinformatics 2013 14 Suppl 9S2