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Anna Zhukova
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Year
Modeling sample variables with an Experimental Factor Ontology
J Malone, E Holloway, T Adamusiak, M Kapushesky, J Zheng, ...
Bioinformatics 26 (8), 1112-1118, 2010
5422010
Controlled vocabularies and semantics in systems biology
M Courtot, N Juty, C Knüpfer, D Waltemath, A Zhukova, A Dräger, ...
Molecular systems biology 7 (1), 543, 2011
3332011
SBML Level 3: an extensible format for the exchange and reuse of biological models
SM Keating, D Waltemath, M König, F Zhang, A Dräger, C Chaouiya, ...
Molecular systems biology 16 (8), e9110, 2020
2042020
A fast likelihood method to reconstruct and visualize ancestral scenarios
SA Ishikawa, A Zhukova, W Iwasaki, O Gascuel
Molecular biology and evolution 36 (9), 2069-2085, 2019
1722019
Toward community standards and software for whole-cell modeling
D Waltemath, JR Karr, FT Bergmann, V Chelliah, M Hucka, M Krantz, ...
IEEE Transactions on Biomedical Engineering 63 (10), 2007-2014, 2016
642016
Genome-Wide Transcriptional Start Site Mapping and sRNA Identification in the Pathogen Leptospira interrogans
A Zhukova, LG Fernandes, P Hugon, CJ Pappas, O Sismeiro, JY Coppée, ...
Frontiers in cellular and infection microbiology 7, 10, 2017
512017
Pantograph: A template-based method for genome-scale metabolic model reconstruction
N Loira, A Zhukova, DJ Sherman
Journal of bioinformatics and computational biology 13 (02), 1550006, 2015
382015
Origin, evolution and global spread of SARS-CoV-2
A Zhukova, L Blassel, F Lemoine, M Morel, J Voznica, O Gascuel
Comptes Rendus. Biologies 344 (1), 57-75, 2021
372021
Drug resistance mutations in HIV: new bioinformatics approaches and challenges
L Blassel, A Zhukova, CJ Villabona-Arenas, KE Atkins, S Hué, O Gascuel
Current opinion in virology 51, 56-64, 2021
332021
The seventh pandemic of cholera in Europe revisited by microbial genomics
M Oprea, E Njamkepo, D Cristea, A Zhukova, CG Clark, AN Kravetz, ...
Nature Communications 11 (1), 5347, 2020
232020
Deep learning from phylogenies to uncover the epidemiological dynamics of outbreaks
J Voznica, A Zhukova, V Boskova, E Saulnier, F Lemoine, ...
Nature Communications 13 (1), 3896, 2022
22*2022
BioSimulators: a central registry of simulation engines and services for recommending specific tools
B Shaikh, LP Smith, D Vasilescu, G Marupilla, M Wilson, E Agmon, ...
Nucleic acids research 50 (W1), W108-W114, 2022
162022
A new SARS-CoV-2 variant poorly detected by RT-PCR on nasopharyngeal samples, with high lethality
P Fillatre, MJ Dufour, S Behillil, R Vatan, P Reusse, A Gabellec, ...
Clinical Microbiology and Infection, 2021
14*2021
Phylogenetic analysis of HIV-1 shows frequent cross-country transmission and local population expansions
M Bennedbćk, A Zhukova, MHE Tang, J Bennet, P Munderi, ...
Virus evolution 7 (2), veab055, 2021
72021
The role of phylogenetics as a tool to predict the spread of resistance
A Zhukova, T Cutino-Moguel, O Gascuel, D Pillay
The Journal of Infectious Diseases 216 (suppl_9), S820-S823, 2017
72017
Genome-wide diversity of Zika virus: Exploring spatio-temporal dynamics to guide a new nomenclature proposal
SG Seabra, PJK Libin, K Theys, A Zhukova, BI Potter, ...
Virus evolution 8 (1), veac029, 2022
62022
Differing impacts of global and regional responses on SARS-CoV-2 transmission cluster dynamics
BR Magalis, A Ramirez-Mata, A Zhukova, C Mavian, S Marini, F Lemoine, ...
bioRxiv, 2020
62020
Knowledge-based generalization of metabolic models
A Zhukova, DJ Sherman
Journal of Computational Biology 21 (7), 534-547, 2014
52014
Cuban history of CRF19 recombinant subtype of HIV-1
A Zhukova, J Voznica, MD Felipe, TH To, L Pérez, Y Martínez, Y Pintos, ...
PLoS Pathog 17 (8), e1009786, 2021
42021
Efficiently analysing large viral data sets in computational phylogenomics
A Zhukova, O Gascuel, S Duchene, D Ayres, P Lemey, G Baele
This book has been completely handled by researchers. No publisher has been …, 2020
42020
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Articles 1–20