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Articles published in PLoS Comput Biol

Retrieve available abstracts of 34 articles:
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Single Articles


    March 2021
  1. ESPINOZA JL, Dupont CL, O'Rourke A, Beyhan S, et al
    Predicting antimicrobial mechanism-of-action from transcriptomes: A generalizable explainable artificial intelligence approach.
    PLoS Comput Biol. 2021;17:e1008857.
    PubMed     Abstract available


    January 2021
  2. KACHALOV VN, Nguyen H, Balakrishna S, Salazar-Vizcaya L, et al
    Identifying the drivers of multidrug-resistant Klebsiella pneumoniae at a European level.
    PLoS Comput Biol. 2021;17:e1008446.
    PubMed     Abstract available


  3. KAVCIC B, Tkacik G, Bollenbach T
    Minimal biophysical model of combined antibiotic action.
    PLoS Comput Biol. 2021;17:e1008529.
    PubMed     Abstract available


    December 2020
  4. LIBISELLER-EGGER J, Phelan J, Campino S, Mohareb F, et al
    Robust detection of point mutations involved in multidrug-resistant Mycobacterium tuberculosis in the presence of co-occurrent resistance markers.
    PLoS Comput Biol. 2020;16:e1008518.
    PubMed     Abstract available


    November 2020
  5. SAHA A, Dixit NM
    Pre-existing resistance in the latent reservoir can compromise VRC01 therapy during chronic HIV-1 infection.
    PLoS Comput Biol. 2020;16:e1008434.
    PubMed     Abstract available


    October 2020
  6. NGUYEN M, Olson R, Shukla M, VanOeffelen M, et al
    Predicting antimicrobial resistance using conserved genes.
    PLoS Comput Biol. 2020;16:e1008319.
    PubMed     Abstract available


    August 2020
  7. CLARELLI F, Palmer A, Singh B, Storflor M, et al
    Drug-target binding quantitatively predicts optimal antibiotic dose levels in quinolones.
    PLoS Comput Biol. 2020;16:e1008106.
    PubMed     Abstract available


  8. LANS I, Anoz-Carbonell E, Palacio-Rodriguez K, Ainsa JA, et al
    In silico discovery and biological validation of ligands of FAD synthase, a promising new antimicrobial target.
    PLoS Comput Biol. 2020;16:e1007898.
    PubMed     Abstract available


    July 2020
  9. PAGE AJ, Bastkowski S, Yasir M, Turner AK, et al
    AlbaTraDIS: Comparative analysis of large datasets from parallel transposon mutagenesis experiments.
    PLoS Comput Biol. 2020;16:e1007980.
    PubMed     Abstract available


  10. KRIEGER MS, Denison CE, Anderson TL, Nowak MA, et al
    Population structure across scales facilitates coexistence and spatial heterogeneity of antibiotic-resistant infections.
    PLoS Comput Biol. 2020;16:e1008010.
    PubMed     Abstract available


    May 2020
  11. CARBALLO-PACHECO M, Nicholson MD, Lilja EE, Allen RJ, et al
    Phenotypic delay in the evolution of bacterial antibiotic resistance: Mechanistic models and their implications.
    PLoS Comput Biol. 2020;16:e1007930.
    PubMed     Abstract available


    April 2020
  12. MARREC L, Bitbol AF
    Resist or perish: Fate of a microbial population subjected to a periodic presence of antimicrobial.
    PLoS Comput Biol. 2020;16:e1007798.
    PubMed     Abstract available


    March 2020
  13. HYUN JC, Kavvas ES, Monk JM, Palsson BO, et al
    Machine learning with random subspace ensembles identifies antimicrobial resistance determinants from pan-genomes of three pathogens.
    PLoS Comput Biol. 2020;16:e1007608.
    PubMed     Abstract available


    January 2020
  14. KIM J, Greenberg DE, Pifer R, Jiang S, et al
    VAMPr: VAriant Mapping and Prediction of antibiotic resistance via explainable features and machine learning.
    PLoS Comput Biol. 2020;16:e1007511.
    PubMed     Abstract available


    December 2019
  15. YAN J, Estanbouli H, Liao C, Kim W, et al
    Systems-level analysis of NalD mutation, a recurrent driver of rapid drug resistance in acute Pseudomonas aeruginosa infection.
    PLoS Comput Biol. 2019;15:e1007562.
    PubMed     Abstract available


    August 2019
  16. SCIRE J, Hoze N, Uecker H
    Aggressive or moderate drug therapy for infectious diseases? Trade-offs between different treatment goals at the individual and population levels.
    PLoS Comput Biol. 2019;15:e1007223.
    PubMed     Abstract available


  17. PHAM TM, Kretzschmar M, Bertrand X, Bootsma M, et al
    Tracking Pseudomonas aeruginosa transmissions due to environmental contamination after discharge in ICUs using mathematical models.
    PLoS Comput Biol. 2019;15:e1006697.
    PubMed     Abstract available


    July 2019
  18. ROBERTS PA, Huebinger RM, Keen E, Krachler AM, et al
    Mathematical model predicts anti-adhesion-antibiotic-debridement combination therapies can clear an antibiotic resistant infection.
    PLoS Comput Biol. 2019;15:e1007211.
    PubMed     Abstract available


    June 2019
  19. HAUSER A, Kusejko K, Johnson LF, Wandeler G, et al
    Bridging the gap between HIV epidemiology and antiretroviral resistance evolution: Modelling the spread of resistance in South Africa.
    PLoS Comput Biol. 2019;15:e1007083.
    PubMed     Abstract available


    May 2019
  20. DUVAL A, Obadia T, Boelle PY, Fleury E, et al
    Close proximity interactions support transmission of ESBL-K. pneumoniae but not ESBL-E. coli in healthcare settings.
    PLoS Comput Biol. 2019;15:e1006496.
    PubMed     Abstract available


    April 2019
  21. NICHOLSON MD, Antal T
    Competing evolutionary paths in growing populations with applications to multidrug resistance.
    PLoS Comput Biol. 2019;15:e1006866.
    PubMed     Abstract available


    March 2019
  22. MUNCH K, Munch R, Biedendieck R, Jahn D, et al
    Evolutionary model for the unequal segregation of high copy plasmids.
    PLoS Comput Biol. 2019;15:e1006724.
    PubMed     Abstract available


    December 2018
  23. MORADIGARAVAND D, Palm M, Farewell A, Mustonen V, et al
    Prediction of antibiotic resistance in Escherichia coli from large-scale pan-genome data.
    PLoS Comput Biol. 2018;14:e1006258.
    PubMed     Abstract available


  24. COKOL M, Li C, Chandrasekaran S
    Chemogenomic model identifies synergistic drug combinations robust to the pathogen microenvironment.
    PLoS Comput Biol. 2018;14:e1006677.
    PubMed     Abstract available


    July 2018
  25. VENUGOPAL V, Padmanabhan P, Raja R, Dixit NM, et al
    Modelling how responsiveness to interferon improves interferon-free treatment of hepatitis C virus infection.
    PLoS Comput Biol. 2018;14:e1006335.
    PubMed     Abstract available


    June 2018
  26. ESTRELA S, Brown SP
    Community interactions and spatial structure shape selection on antibiotic resistant lineages.
    PLoS Comput Biol. 2018;14:e1006179.
    PubMed     Abstract available


    February 2018
  27. NEAGU IA, Olejarz J, Freeman M, Rosenbloom DIS, et al
    Life cycle synchronization is a viral drug resistance mechanism.
    PLoS Comput Biol. 2018;14:e1005947.
    PubMed     Abstract available


  28. COLLINS C, Didelot X
    A phylogenetic method to perform genome-wide association studies in microbes that accounts for population structure and recombination.
    PLoS Comput Biol. 2018;14:e1005958.
    PubMed     Abstract available


    October 2017
  29. HAKE A, Pfeifer N
    Prediction of HIV-1 sensitivity to broadly neutralizing antibodies shows a trend towards resistance over time.
    PLoS Comput Biol. 2017;13:e1005789.
    PubMed     Abstract available


    September 2017
  30. TEPEKULE B, Uecker H, Derungs I, Frenoy A, et al
    Modeling antibiotic treatment in hospitals: A systematic approach shows benefits of combination therapy over cycling, mixing, and mono-drug therapies.
    PLoS Comput Biol. 2017;13:e1005745.
    PubMed     Abstract available


    January 2017
  31. ABEL ZUR WIESCH P, Clarelli F, Cohen T
    Using Chemical Reaction Kinetics to Predict Optimal Antibiotic Treatment Strategies.
    PLoS Comput Biol. 2017;13:e1005321.
    PubMed     Abstract available


  32. ROSSI NA, Dunlop MJ
    Customized Regulation of Diverse Stress Response Genes by the Multiple Antibiotic Resistance Activator MarA.
    PLoS Comput Biol. 2017;13:e1005310.
    PubMed     Abstract available


    June 2016
  33. LEE D, Das S, Dawson NL, Dobrijevic D, et al
    Novel Computational Protocols for Functionally Classifying and Characterising Serine Beta-Lactamases.
    PLoS Comput Biol. 2016;12:e1004926.
    PubMed     Abstract available


    May 2016
  34. RAST LI, Rouzine IM, Rozhnova G, Bishop L, et al
    Conflicting Selection Pressures Will Constrain Viral Escape from Interfering Particles: Principles for Designing Resistance-Proof Antivirals.
    PLoS Comput Biol. 2016;12:e1004799.
    PubMed     Abstract available


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