Osvaldo Zagordi
Osvaldo Zagordi
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ShoRAH: estimating the genetic diversity of a mixed sample from next-generation sequencing data
O Zagordi, A Bhattacharya, N Eriksson, N Beerenwinkel
BMC bioinformatics 12 (1), 1-5, 2011
Error correction of next-generation sequencing data and reliable estimation of HIV quasispecies
O Zagordi, R Klein, M Däumer, N Beerenwinkel
Nucleic acids research 38 (21), 7400-7409, 2010
Ultra-deep sequencing for the analysis of viral populations
N Beerenwinkel, O Zagordi
Current opinion in virology 1 (5), 413-418, 2011
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
Glycosylations in the globular head of the hemagglutinin protein modulate the virulence and antigenic properties of the H1N1 influenza viruses
RA Medina, S Stertz, B Manicassamy, P Zimmermann, X Sun, RA Albrecht, ...
Science translational medicine 5 (187), 187ra70-187ra70, 2013
Deep sequencing of a genetically heterogeneous sample: local haplotype reconstruction and read error correction
O Zagordi, L Geyrhofer, V Roth, N Beerenwinkel
Journal of computational biology 17 (3), 417-428, 2010
HIV haplotype inference using a propagating dirichlet process mixture model
S Prabhakaran, M Rey, O Zagordi, N Beerenwinkel, V Roth
IEEE/ACM transactions on computational biology and bioinformatics 11 (1 …, 2013
Next-generation sequencing of HIV-1 RNA genomes: determination of error rates and minimizing artificial recombination
F Di Giallonardo, O Zagordi, Y Duport, C Leemann, B Joos, ...
PloS one 8 (9), e74249, 2013
Read length versus depth of coverage for viral quasispecies reconstruction
O Zagordi, M Däumer, C Beisel, N Beerenwinkel
Public Library of Science 7 (10), e47046, 2012
Accurate single nucleotide variant detection in viral populations by combining probabilistic clustering with a statistical test of strand bias
K McElroy, O Zagordi, R Bull, F Luciani, N Beerenwinkel
BMC genomics 14, 1-12, 2013
Metagenomic sequencing complements routine diagnostics in identifying viral pathogens in lung transplant recipients with unknown etiology of respiratory infection
DW Lewandowska, PW Schreiber, MM Schuurmans, B Ruehe, O Zagordi, ...
PloS one 12 (5), e0177340, 2017
MinVar: A rapid and versatile tool for HIV-1 drug resistance genotyping by deep sequencing
M Huber, KJ Metzner, FD Geissberger, C Shah, C Leemann, T Klimkait, ...
Journal of virological methods 240, 7-13, 2017
Optimization and validation of sample preparation for metagenomic sequencing of viruses in clinical samples
DW Lewandowska, O Zagordi, FD Geissberger, V Kufner, S Schmutz, ...
Microbiome 5 (1), 1-13, 2017
Viral metagenomics in the clinical realm: lessons learned from a Swiss-wide ring trial
T Junier, M Huber, S Schmutz, V Kufner, O Zagordi, S Neuenschwander, ...
Genes 10 (9), 655, 2019
Unbiased metagenomic sequencing complements specific routine diagnostic methods and increases chances to detect rare viral strains
DW Lewandowska, O Zagordi, A Zbinden, MM Schuurmans, P Schreiber, ...
Diagnostic microbiology and infectious disease 83 (2), 133-138, 2015
Profiling host ANP32A splicing landscapes to predict influenza A virus polymerase adaptation
P Domingues, D Eletto, C Magnus, HL Turkington, S Schmutz, O Zagordi, ...
Nature communications 10 (1), 3396, 2019
Delineating CD4 dependency of HIV-1: Adaptation to infect low level CD4 expressing target cells widens cellular tropism but severely impacts on envelope functionality
D Beauparlant, P Rusert, C Magnus, C Kadelka, J Weber, T Uhr, ...
PLoS pathogens 13 (3), e1006255, 2017
HIV-haplotype inference using a constraint-based dirichlet process mixture model
S Prabhakaran, M Rey, O Zagordi, N Beerenwinkel, V Roth
Machine Learning in Computational Biology (MLCB) NIPS Workshop, 1-4, 2010
High-throughput sequencing of human immunoglobulin variable regions with subtype identification
M Schanz, T Liechti, O Zagordi, E Miho, ST Reddy, HF Günthard, A Trkola, ...
PloS one 9 (11), e111726, 2014
Ultradeep pyrosequencing of hepatitis C virus hypervariable region 1 in quasispecies analysis
K Caraballo Cortés, O Zagordi, T Laskus, R Płoski, I Bukowska-Ośko, ...
BioMed Research International 2013, 2013
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