| 36932614 | Bézier interpolation improves the inference of dynamical models from data. | Phys Rev E | 2023 |
| 37695895 | An inference model gives insights into innate immune adaptation and repertoire diversity. | Proc Natl Acad Sci U S A | 2023 |
| 37391513 | Small RNA sequencing of field Culex mosquitoes identifies patterns of viral infection and the mosquito immune response. | Sci Rep | 2023 |
| 36610715 | Estimating linkage disequilibrium and selection from allele frequency trajectories. | Genetics | 2023 |
| 35076276 | Correction for Rando et al., "Pathogenesis, Symptomatology, and Transmission of SARS-CoV-2 through Analysis of Viral Genomics and Structure". | mSystems | 2022 |
| 36130322 | Inferring Epistasis from Genetic Time-series Data. | Mol Biol Evol | 2022 |
| 33257862 | MPL resolves genetic linkage in fitness inference from complex evolutionary histories. | Nat Biotechnol | 2021 |
| 33514660 | Adenovirus-vectored vaccine containing multidimensionally conserved parts of the HIV proteome is immunogenic in rhesus macaques. | Proc Natl Acad Sci U S A | 2021 |
| 32956362 | Cross-serotypically conserved epitope recommendations for a universal T cell-based dengue vaccine. | PLoS Negl Trop Dis | 2020 |
| 31953427 | Deconvolving mutational patterns of poliovirus outbreaks reveals its intrinsic fitness landscape. | Nat Commun | 2020 |
| 32069678 | Inference of compressed Potts graphical models. | Phys Rev E | 2020 |
| 31851308 | MPF-BML: a standalone GUI-based package for maximum entropy model inference. | Bioinformatics | 2020 |
| 33085662 | Predominance of positive epistasis among drug resistance-associated mutations in HIV-1 protease. | PLoS Genet | 2020 |
| 30700598 | Characterization of Intact Proviruses in Blood and Lymph Node from HIV-Infected Individuals Undergoing Analytical Treatment Interruption. | J Virol | 2019 |
| 31392033 | Modelling and <i>in vitro</i> testing of the HIV-1 Nef fitness landscape. | Virus Evol | 2019 |
| 29311326 | Fitness landscape of the human immunodeficiency virus envelope protein that is targeted by antibodies. | Proc Natl Acad Sci U S A | 2018 |
| 30072495 | Relationship between latent and rebound viruses in a clinical trial of anti-HIV-1 antibody 3BNC117. | J Exp Med | 2018 |
| 30420517 | Relationship between intact HIV-1 proviruses in circulating CD4<sup>+</sup> T cells and rebound viruses emerging during treatment interruption. | Proc Natl Acad Sci U S A | 2018 |
| 29442996 | Role of framework mutations and antibody flexibility in the evolution of broadly neutralizing antibodies. | Elife | 2018 |
| 28059778 | Rational design of vaccine targets and strategies for HIV: a crossroad of statistical physics, biology, and medicine. | Rep Prog Phys | 2017 |
| 28686159 | Deconstruction of the Ras switching cycle through saturation mutagenesis. | Elife | 2017 |
| 26986367 | Identification of drug resistance mutations in HIV from constraints on natural evolution. | Phys Rev E | 2016 |
| 27872306 | Paired quantitative and qualitative assessment of the replication-competent HIV-1 reservoir and comparison with integrated proviral DNA. | Proc Natl Acad Sci U S A | 2016 |
| 27329863 | ACE: adaptive cluster expansion for maximum entropy graphical model inference. | Bioinformatics | 2016 |
| 27212475 | Relative rate and location of intra-host HIV evolution to evade cellular immunity are predictable. | Nat Commun | 2016 |
| 25646424 | Scaling laws describe memories of host-pathogen riposte in the HIV population. | Proc Natl Acad Sci U S A | 2015 |
| 25102049 | The fitness landscape of HIV-1 gag: advanced modeling approaches and validation of model predictions by in vitro testing. | PLoS Comput Biol | 2014 |
| 25122276 | Large pseudocounts and L2-norm penalties are necessary for the mean-field inference of Ising and Potts models. | Phys Rev E Stat Nonlin Soft Matter Phys | 2014 |
| 23528097 | The energy costs of insulators in biochemical networks. | Biophys J | 2013 |
| 24483484 | Spin models inferred from patient-derived viral sequence data faithfully describe HIV fitness landscapes. | Phys Rev E Stat Nonlin Soft Matter Phys | 2013 |
| 20962947 | Actual focal length of a symmetric biconvex microlens and its application in determining the transmitted beam waist position. | Appl Opt | 2010 |
| 17384721 | Electromagnetic field for a tightly focused beam incident upon ordinary and layered plane surfaces. | Appl Opt | 2007 |
| 15898558 | Electromagnetic field for a focused light sheet incident on a plane surface. | J Opt Soc Am A Opt Image Sci Vis | 2005 |
| 12656356 | Near-field calculations for a rigid spheroid with an arbitrary incident acoustic field. | J Acoust Soc Am | 2003 |
| 12469737 | Electromagnetic field calculations for an irregularly shaped, near-spheroidal particle with arbitrary illumination. | J Opt Soc Am A Opt Image Sci Vis | 2002 |
| 18360389 | Internal, near-surface, and scattered electromagnetic fields for a layered spheroid with arbitrary illumination. | Appl Opt | 2001 |
| 10708026 | Electromagnetic fields for a spheroidal particle with an arbitrary embedded source. | J Opt Soc Am A Opt Image Sci Vis | 2000 |
| 18091956 | Excitation localization principle for spherical microcavities. | Opt Lett | 1998 |
| 18273293 | Electromagnetic field calculations for a sphere illuminated by a higher-order Gaussian beam. II. Far-field scattering. | Appl Opt | 1998 |
| 18250804 | Electromagnetic-field calculations for a sphere illuminated by a higher-order Gaussian beam. I. Internal and near-field effects. | Appl Opt | 1997 |
| 18250805 | Electromagnetic-field calculations for irregularly shaped, layered cylindrical particles with focused illumination. | Appl Opt | 1997 |
| 21069037 | Electromagnetic-field calculations for irregularly shaped, axisymmetric layered particles with focused illumination. | Appl Opt | 1996 |
| 21060377 | Internal and near-surface electromagnetic fields for a spheroidal particle with arbitrary illumination. | Appl Opt | 1995 |
| 21068967 | Internal and near-surface electromagnetic fields for an absorbing spheroidal particle with arbitrary illumination. | Appl Opt | 1995 |
| 20862039 | Theoretical analysis of the effects of particle trajectory and structural resonances on the performance of a phase-Doppler particle analyzer. | Appl Opt | 1994 |
| 20717273 | Electromagnetic field for a beam incident on two adjacent spherical particles. | Appl Opt | 1991 |
| 20700304 | Nonlinear interaction of KrF laser radiation with small water droplets. | Appl Opt | 1991 |
| 20717280 | Theoretical model of the laser imaging of small aerosols: applications to aerosol sizing. | Appl Opt | 1991 |
| 19752892 | Scattering of incident KrF laser radiation resulting from the laser-induced breakdown of H(2)O droplets. | Opt Lett | 1989 |
| 20548723 | Focused laser beam interactions with methanol droplets: effects of relative beam diameter. | Appl Opt | 1989 |