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HIV Infection

Free Subscription Articles published in PLoS Comput Biol Retrieve available abstracts of 22 articles: HTML format

Single Articles

November 2025
1. DANKWA EA, Cavalli L, Balasubramanian R, Can MH, et al
   Calibration of transmission-dynamic infectious disease models: A scoping review and reporting framework.
   PLoS Comput Biol. 2025;21:e1013647.
   PubMed     Abstract available
   
   
   October 2025
2. JOUBBI S, Micheli A, Milazzo P, Ciano G, et al
   Enhancing antibody-antigen interaction prediction with atomic flexibility.
   PLoS Comput Biol. 2025;21:e1013576.
   PubMed     Abstract available
   
   
   September 2025
3. MULLER NF, Bouckaert RR, Wu CH, Bedford T, et al
   MASCOT-Skyline integrates population and migration dynamics to enhance phylogeographic reconstructions.
   PLoS Comput Biol. 2025;21:e1013421.
   PubMed     Abstract available
   
   
   
4. SAMBATURU N, Lapp Z, Tria FDK, Romero-Severson E, et al
   wavess: An R package for simulation of adaptive within-host virus sequence evolution.
   PLoS Comput Biol. 2025;21:e1013437.
   PubMed     Abstract available
   
   
   
5. GARCIA NOCEDA M, Kher G, Uttam S, Barton JP, et al
   Clonal heterogeneity and antigenic stimulation shape persistence of the latent reservoir of HIV.
   PLoS Comput Biol. 2025;21:e1013433.
   PubMed     Abstract available
   
   
   
6. BURBACH SM, Briney B
   A curriculum learning approach to training antibody language models.
   PLoS Comput Biol. 2025;21:e1013473.
   PubMed     Abstract available
   
   
   July 2025
7. NGANDU NK, Fielding BC, van Heusden P, Mcinga K, et al
   Population-level toggling of T cell immune escape at human leukocyte antigen anchor residues in SARS-CoV-2 Spike proteins, in an ethnically diverse population region.
   PLoS Comput Biol. 2025;21:e1013261.
   PubMed     Abstract available
   
   
   June 2025
8. YAMAMOTO N, Citron DT, Mwalili SM, Gathungu DK, et al
   Uncovering the impact of randomness in HIV hotspot formation: A mathematical modeling study.
   PLoS Comput Biol. 2025;21:e1013178.
   PubMed     Abstract available
   
   
   May 2025
9. ZHUKOVA A, Gascuel O
   Accounting for contact tracing in epidemiological birth-death models.
   PLoS Comput Biol. 2025;21:e1012461.
   PubMed     Abstract available
   
   
   
10. DENG Q, Woldegerima WA, Zhang W, Asgary A, et al
    Uncovering the impact of infection routes on within-host MPXV dynamics: Insights from a mathematical modeling study.
    PLoS Comput Biol. 2025;21:e1013073.
    PubMed     Abstract available
    
    
    February 2025
11. TESLYA A, Heijne JCM, van der Loeff MFS, van Sighem A, et al
    Impact of increased diagnosis of early HIV infection and immediate antiretroviral treatment initiation on HIV transmission among men who have sex with men in the Netherlands.
    PLoS Comput Biol. 2025;21:e1012055.
    PubMed     Abstract available
    
    
    
12. BANHOLZER N, Middelkoop K, Leukes J, Weingartner E, et al
    Estimating Mycobacterium tuberculosis transmission in a South African clinic: Spatiotemporal model based on person movements.
    PLoS Comput Biol. 2025;21:e1012823.
    PubMed     Abstract available
    
    
    December 2024
13. ABRAHAM AA, Tan ZC, Shrestha P, Bozich ER, et al
    A multivalent binding model infers antibody Fc species from systems serology.
    PLoS Comput Biol. 2024;20:e1012663.
    PubMed     Abstract available
    
    
    November 2024
14. IGIRANEZA AB, Zacharopoulou P, Hinch R, Wymant C, et al
    Learning patterns of HIV-1 resistance to broadly neutralizing antibodies with reduced subtype bias using multi-task learning.
    PLoS Comput Biol. 2024;20:e1012618.
    PubMed     Abstract available
    
    
    September 2024
15. VEMPARALA B, Madelain V, Passaes C, Millet A, et al
    Antiviral capacity of the early CD8 T-cell response is predictive of natural control of SIV infection: Learning in vivo dynamics using ex vivo data.
    PLoS Comput Biol. 2024;20:e1012434.
    PubMed     Abstract available
    
    
    July 2024
16. TATARA E, Lin Q, Ozik J, Kolak M, et al
    Spatial inequities in access to medications for treatment of opioid use disorder highlight scarcity of methadone providers under counterfactual scenarios.
    PLoS Comput Biol. 2024;20:e1012307.
    PubMed     Abstract available
    
    
    June 2024
17. ADOLF-BRYFOGLE J, Labonte JW, Kraft JC, Shapovalov M, et al
    Growing Glycans in Rosetta: Accurate de novo glycan modeling, density fitting, and rational sequon design.
    PLoS Comput Biol. 2024;20:e1011895.
    PubMed     Abstract available
    
    
    
18. MAINOU E, Ribeiro RM, Conway JM
    Modeling dynamics of acute HIV infection incorporating density-dependent cell death and multiplicity of infection.
    PLoS Comput Biol. 2024;20:e1012129.
    PubMed     Abstract available
    
    
    April 2024
19. ZITZMANN C, Ke R, Ribeiro RM, Perelson AS, et al
    How robust are estimates of key parameters in standard viral dynamic models?
    PLoS Comput Biol. 2024;20:e1011437.
    PubMed     Abstract available
    
    
    
20. SUN C, Fang R, Salemi M, Prosperi M, et al
    DeepDynaForecast: Phylogenetic-informed graph deep learning for epidemic transmission dynamic prediction.
    PLoS Comput Biol. 2024;20:e1011351.
    PubMed     Abstract available
    
    
    March 2024
21. SHAO Y, Magee AF, Vasylyeva TI, Suchard MA, et al
    Scalable gradients enable Hamiltonian Monte Carlo sampling for phylodynamic inference under episodic birth-death-sampling models.
    PLoS Comput Biol. 2024;20:e1011640.
    PubMed     Abstract available
    
    
    
22. CASSIDY T, Stephenson KE, Barouch DH, Perelson AS, et al
    Modeling resistance to the broadly neutralizing antibody PGT121 in people living with HIV-1.
    PLoS Comput Biol. 2024;20:e1011518.
    PubMed     Abstract available
    
    

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