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2020 – today
- 2020
[j11]Sara Cleemput, Wim Dumon, Vagner Fonseca
, Wasim Abdool Karim, Marta Giovanetti, Luiz Carlos Alcantara, Koen Deforche, Tulio de Oliveira:
Genome Detective Coronavirus Typing Tool for rapid identification and characterization of novel coronavirus genomes. Bioinform. 36(11): 3552-3555 (2020)
2010 – 2019
- 2019
- [j10]Michael Vilsker, Yumna Moosa, Sam Nooij, Vagner Fonseca, Yoika Ghysens, Korneel Dumon, Raf Pauwels, Luiz Carlos Alcantara, Ewout Vanden Eynden, Anne-Mieke Vandamme, Koen Deforche, Tulio de Oliveira:
Genome Detective: an automated system for virus identification from high-throughput sequencing data. Bioinform. 35(5): 871-873 (2019) - [j9]Pieter J. K. Libin, Koen Deforche, Ana B. Abecasis, Kristof Theys:
VIRULIGN: fast codon-correct alignment and annotation of viral genomes. Bioinform. 35(10): 1763-1765 (2019) - 2013
- [j8]Pieter Libin, Gertjan Beheydt, Koen Deforche, Stijn Imbrechts, Fossie Ferreira, Kristel Van Laethem, Kristof Theys, Ana Patricia Carvalho, Joana Cavaco-Silva, Giuseppe Lapadula, Carlo Torti, Matthias Assel, Stefan Wesner, Joke Snoeck, Jean Ruelle, Annelies De Bel, Patrick Lacor, Paul De Munter, Eric Van Wijngaerden, Maurizio Zazzi, Rolf Kaiser, Ahidjo Ayouba, Martine Peeters, Tulio de Oliveira, Luiz Carlos Júnior Alcântara, Zehava Grossman, Peter M. A. Sloot, Dan Otelea, Simona Paraschiv, Charles A. Boucher, Ricardo Camacho, Anne-Mieke Vandamme:
RegaDB: community-driven data management and analysis for infectious diseases. Bioinform. 29(11): 1477-1480 (2013) - 2010
- [j7]Kristof Theys, Koen Deforche, Gertjan Beheydt, Yves Moreau, Kristel Van Laethem, Philippe Lemey, Ricardo Camacho, Soo-Yon Rhee, Robert W. Shafer, Eric Van Wijngaerden, Anne-Mieke Vandamme:
Estimating the individualized HIV-1 genetic barrier to resistance using a nelfinavir fitness landscape. BMC Bioinform. 11: 409 (2010)
2000 – 2009
- 2009
- [j6]Luiz Carlos Júnior Alcântara, Sharon Cassol, Pieter Libin, Koen Deforche, Oliver G. Pybus, Marc Van Ranst, Bernardo Galvão-Castro, Anne-Mieke Vandamme, Tulio de Oliveira:
A standardized framework for accurate, high-throughput genotyping of recombinant and non-recombinant viral sequences. Nucleic Acids Res. 37(Web-Server-Issue): 634-642 (2009) - 2008
- [j5]Koen Deforche, Ricardo Camacho, Kristel Van Laethem, Philippe Lemey, Andrew Rambaut, Yves Moreau, Anne-Mieke Vandamme:
Estimation of an in vivo fitness landscape experienced by HIV-1 under drug selective pressure useful for prediction of drug resistance evolution during treatment. Bioinform. 24(1): 34-41 (2008) - 2007
- [j4]Koen Deforche, Ricardo Camacho, Kristel Van Laethem, Beth Shapiro, Yves Moreau, Andrew Rambaut, Anne-Mieke Vandamme, Philippe Lemey:
Estimating the Relative Contribution of dNTP Pool Imbalance and APOBEC3G/3F Editing to HIV Evolution In Vivo. J. Comput. Biol. 14(8): 1105-1114 (2007) - 2006
- [j3]Koen Deforche, Tomi Silander, Ricardo Camacho, Zehava Grossman, M. A. Soares, Kristel Van Laethem, Rami Kantor, Yves Moreau, Anne-Mieke Vandamme:
Analysis of HIV-1 pol sequences using Bayesian Networks: implications for drug resistance. Bioinform. 22(24): 2975-2979 (2006) - 2005
- [j2]Dimitris Paraskevis, Koen Deforche, Philippe Lemey, Gkikas Magiorkinis, Angelos Hatzakis, Anne-Mieke Vandamme:
SlidingBayes: exploring recombination using a sliding window approach based on Bayesian phylogenetic inference. Bioinform. 21(7): 1274-1275 (2005) - [j1]Tulio de Oliveira, Koen Deforche, Sharon Cassol, Mika Salminen, Dimitris Paraskevis, Chris Seebregts, Joke Snoeck, Estrelita J. Janse van Rensburg, Annemarie M. J. Wensing, David A. van de Vijver, Charles A. Boucher, Ricardo Camacho, Anne-Mieke Vandamme:
An automated genotyping system for analysis of HIV-1 and other microbial sequences. Bioinform. 21(19): 3797-3800 (2005)
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