| Accurate circular consensus long-read sequencing improves variant detection and assembly of a human genome AM Wenger, P Peluso, WJ Rowell, PC Chang, RJ Hall, GT Concepcion, ... Nature biotechnology 37 (10), 1155-1162, 2019 | 1422 | 2019 |
| Probabilistic inference of viral quasispecies subject to recombination A Töpfer, O Zagordi, S Prabhakaran, V Roth, E Halperin, N Beerenwinkel Journal of Computational Biology 20 (2), 113-123, 2013 | 170* | 2013 |
| Full-length haplotype reconstruction to infer the structure of heterogeneous virus populations FD Giallonardo, A Töpfer, M Rey, S Prabhakaran, Y Duport, C Leemann, ... Nucleic acids research 42 (14), e115-e115, 2014 | 150 | 2014 |
| Viral quasispecies assembly via maximal clique enumeration A Töpfer, T Marschall, RA Bull, F Luciani, A Schönhuth, N Beerenwinkel PLoS computational biology 10 (3), e1003515, 2014 | 123 | 2014 |
| DeepConsensus improves the accuracy of sequences with a gap-aware sequence transformer G Baid, DE Cook, K Shafin, T Yun, F Llinares-López, Q Berthet, ... Nature Biotechnology 41 (2), 232-238, 2023 | 83 | 2023 |
| Challenges in RNA virus bioinformatics M Marz, N Beerenwinkel, C Drosten, M Fricke, D Frishman, IL Hofacker, ... Bioinformatics 30 (13), 1793-1799, 2014 | 76 | 2014 |
| A method for near full-length amplification and sequencing for six hepatitis C virus genotypes RA Bull, AA Eltahla, C Rodrigo, SM Koekkoek, M Walker, MR Pirozyan, ... BMC genomics 17, 1-10, 2016 | 72 | 2016 |
| Sequencing approach to analyze the role of quasispecies for classical swine fever A Töpfer, D Höper, S Blome, M Beer, N Beerenwinkel, N Ruggli, I Leifer Virology 438 (1), 14-19, 2013 | 54 | 2013 |
| Single-molecule sequencing reveals complex genome variation of hepatitis B virus during 15 years of chronic infection following liver transplantation BD Betz-Stablein, A Töpfer, M Littlejohn, L Yuen, D Colledge, V Sozzi, ... Journal of virology 90 (16), 7171-7183, 2016 | 48 | 2016 |
| BioXSD: the common data-exchange format for everyday bioinformatics web services M Kalaš, P Puntervoll, A Joseph, E Bartaševičiūtė, A Töpfer, ... Bioinformatics 26 (18), i540-i546, 2010 | 33 | 2010 |
| A comprehensive analysis of primer IDs to study heterogeneous HIV-1 populations D Seifert, F Di Giallonardo, A Töpfer, J Singer, S Schmutz, HF Günthard, ... Journal of molecular biology 428 (1), 238-250, 2016 | 32 | 2016 |
| Deepconsensus: Gap-aware sequence transformers for sequence correction G Baid, DE Cook, K Shafin, T Yun, F Llinares-Lopez, Q Berthet, ... BioRxiv, 2021.08. 31.458403, 2021 | 15 | 2021 |
| Highly-accurate long-read sequencing improves variant detection and assembly of a human genome. bioRxiv 519025 AM Wenger, P Peluso, WJ Rowell, PC Chang, RJ Hall, GT Concepcion, ... Figure Legends Figure 1, 2019 | 9 | 2019 |
| Library prep and bioinformatics improvements for full-length transcript sequencing on the PacBio sequel system M Vierra, B Galvin, T Hon, H Ferrao, A Töpfer, Y Li, E Tseng Plant and Animal Genome XXVII Conference, 2019 | 1 | 2019 |
| Probabilistic viral quasispecies assembly A Töpfer, N Beerenwinkel Computational Methods for Next Generation Sequencing Data Analysis, 355-381, 2016 | 1 | 2016 |
| P592: HiFi reads provide accurate detection of variants and DNA methylation in challenging regions of the genome G Young, A Wenger, M Boitano, A Toepfer, C Lambert, P Baybayan, ... Genetics in Medicine Open 1 (1), 2023 | | 2023 |
| Knowledge distillation for fast and accurate DNA sequence correction A Belyaeva, J Shor, DE Cook, K Shafin, D Liu, A Töpfer, AM Wenger, ... arXiv preprint arXiv:2211.09862, 2022 | | 2022 |
| DeepConsensus improves the accuracy of sequences with a gap-aware sequence transformer A Wenger, A Kolesnikov, AW Carroll, A Töpfer, AT Vaswani, C McLean, ... | | 2022 |
| Comprehensive single-nucleotide, indel, structural, and copy-number variant detection in human genomes with PacBio HiFi reads AM Wenger, WJ Rowell, A Topfer, L Hickey EUROPEAN JOURNAL OF HUMAN GENETICS 28 (SUPPL 1), 600-600, 2020 | | 2020 |
| Comprehensive Single-Nucleotide, Indel, Structural, and Copy-Number Variant Detection in Human Genomes with PacBio HiFi Reads W Rowell, A Wenger, L Hickey, A Toepfer JOURNAL OF MOLECULAR DIAGNOSTICS 22 (11), S51-S51, 2020 | | 2020 |
Niko BeerenwinkelProfessor of Computational Biology, ETH ZurichVerified email at bsse.ethz.ch
