| Eleven grand challenges in single-cell data science D Lähnemann, J Köster, E Szczurek, DJ McCarthy, SC Hicks, ... Genome biology 21 (1), 1-35, 2020 | 1107 | 2020 |
| Good laboratory practice for clinical next-generation sequencing informatics pipelines AS Gargis, L Kalman, DP Bick, C Da Silva, DP Dimmock, BH Funke, ... Nature biotechnology 33 (7), 689-693, 2015 | 172 | 2015 |
| Technology dictates algorithms: recent developments in read alignment M Alser, J Rotman, D Deshpande, K Taraszka, H Shi, PI Baykal, HT Yang, ... Genome biology 22 (1), 249, 2021 | 126 | 2021 |
| Efficient error correction for next-generation sequencing of viral amplicons P Skums, Z Dimitrova, DS Campo, G Vaughan, L Rossi, JC Forbi, ... BMC Bioinformatics 13 (Suppl 10), S6, 2012 | 92 | 2012 |
| Accurate genetic detection of hepatitis C virus transmissions in outbreak settings DS Campo, GL Xia, Z Dimitrova, Y Lin, JC Forbi, L Ganova-Raeva, ... The Journal of infectious diseases 213 (6), 957-965, 2016 | 90 | 2016 |
| QUENTIN: reconstruction of disease transmissions from viral quasispecies genomic data P Skums, A Zelikovsky, R Singh, W Gussler, Z Dimitrova, S Knyazev, ... Bioinformatics 34 (1), 163-170, 2018 | 77 | 2018 |
| Next-generation sequencing reveals large connected networks of intra-host HCV variants DS Campo, Z Dimitrova, L Yamasaki, P Skums, DTY Lau, G Vaughan, ... BMC genomics 15, 1-9, 2014 | 63 | 2014 |
| Epidemiological data analysis of viral quasispecies in the next-generation sequencing era S Knyazev, L Hughes, P Skums, A Zelikovsky Briefings in bioinformatics 22 (1), 96-108, 2021 | 62 | 2021 |
| A large HCV transmission network enabled a fast-growing HIV outbreak in rural Indiana, 2015 S Ramachandran, H Thai, JC Forbi, RR Galang, Z Dimitrova, G Xia, Y Lin, ... EBioMedicine 37, 374-381, 2018 | 62 | 2018 |
| Unlocking capacities of genomics for the COVID-19 response and future pandemics S Knyazev, K Chhugani, V Sarwal, R Ayyala, H Singh, S Karthikeyan, ... Nature methods 19 (4), 374-380, 2022 | 57 | 2022 |
| Benchmarking of computational error-correction methods for next-generation sequencing data K Mitchell, JJ Brito, I Mandric, Q Wu, S Knyazev, S Chang, LS Martin, ... Genome biology 21, 1-13, 2020 | 49 | 2020 |
| Accurate assembly of minority viral haplotypes from next-generation sequencing through efficient noise reduction S Knyazev, V Tsyvina, A Shankar, A Melnyk, A Artyomenko, T Malygina, ... Nucleic acids research 49 (17), e102-e102, 2021 | 48 | 2021 |
| Antigenic cooperation among intrahost HCV variants organized into a complex network of cross-immunoreactivity P Skums, L Bunimovich, Y Khudyakov Proceedings of the National Academy of Sciences 112 (21), 6653-6658, 2015 | 48 | 2015 |
| GHOST: global hepatitis outbreak and surveillance technology AG Longmire, S Sims, I Rytsareva, DS Campo, P Skums, Z Dimitrova, ... BMC genomics 18, 21-32, 2017 | 45 | 2017 |
| Reconstruction of viral population structure from next-generation sequencing data using multicommodity flows P Skums, N Mancuso, A Artyomenko, B Tork, I Mandoiu, Y Khudyakov, ... BMC bioinformatics 14, 1-13, 2013 | 40 | 2013 |
| From alpha to zeta: Identifying variants and subtypes of sars-cov-2 via clustering A Melnyk, F Mohebbi, S Knyazev, B Sahoo, R Hosseini, P Skums, ... Journal of Computational Biology 28 (11), 1113-1129, 2021 | 36* | 2021 |
| CliqueSNV: an efficient noise reduction technique for accurate assembly of viral variants from NGS data S Knyazev, V Tsyvina, A Shankar, A Melnyk, A Artyomenko, T Malygina, ... bioRxiv 264242, 2020 | 36* | 2020 |
| Inference of genetic relatedness between viral quasispecies from sequencing data O Glebova, S Knyazev, A Melnyk, A Artyomenko, Y Khudyakov, ... BMC genomics 18, 81-88, 2017 | 32 | 2017 |
| Analysis of the evolution and structure of a complex intrahost viral population in chronic hepatitis C virus mapped by ultradeep pyrosequencing BA Palmer, Z Dimitrova, P Skums, O Crosbie, E Kenny-Walsh, LJ Fanning Journal of virology 88 (23), 13709-13721, 2014 | 32 | 2014 |
| Reconstructing viral quasispecies from NGS amplicon reads N Mancuso, B Tork, P Skums, L Ganova-Raeva, I Măndoiu, A Zelikovsky In silico biology 11 (5, 6), 237-249, 2011 | 29 | 2011 |
Alexander ZelikovskyDistinguished University Professor at Georgia State UniversityVerified email at gsu.edu
