32nd International Dynamics & Evolution of Human Viruses

Session

Virtual posters

Not scheduled

Abbaye de Royaumont, Asnières-sur-Oise, France

Contribution list Timetable

29. Advancing Genotype-Phenotype Analysis with AI: Deep Learning Approaches and Genomic Language Models

Ali Rahnavard (The George Washington University)

Genomics & bioinformatics

Poster

72. An algorithm to predict efficacy of HIV-like particle (HLP) as a latency reversal agent based on the coverage of MHC class II-restricted peptides from the HLP versus that from the infecting HIV in each participant

Eric Arts (Western University)

Vaccines & immune escape

Poster

55. Antiviral treatments to prevent outbreaks of respiratory viruses in nursing homes: a modelling analysis

Dr Hind Zaaraoui (INSERM)

Within-host dynamics & adaptation

Poster

36. Assessing the effect of model specification and prior sensitivity on Bayesian tests of temporal signal for Viral Molecular Sequences

John Tay (Institut Pasteur | University of Melbourne)

Genomics & bioinformatics

Poster

89. Automating Evaluation Of Convergence In Bayesian Phylogenetic Inference With Machine Learning

Mx Giuli Sucar (Joy Lab, BCCFE)

Genomics & bioinformatics

Poster

66. BAYESIAN PHYLODYNAMIC INFERENCE OF HETEROGENEOUS EPIDEMIC TRAJECTORIES USING GENOMIC DATA

Timothy Vaughan (ETH Zurich)

Phylodynamics & phylogeography

Poster

47. CHARACTERIZATION OF HIV-1 GENETIC DIVERSITY, TROPISMS AND DRMS IN HIV-INFECTED INDIVIDUALS IN SOUTHSOUTH, NIGERIA

Iheanyi Okonko (University of Port Harcourt, Choba, Port Harcourt, Rivers State, 500102 Nigeria.)

Transmission dynamics & clusters

Poster

64. CLONAL EXPANSION IN THE LATENT HIV RESERVOIR: WHAT IS THE PROBABILITY THAT GENETICALLY IDENTICAL PROVIRUSES ARE CLONAL?

Amjad Khan (Western University)

Within-host dynamics & adaptation

Poster

1. CLUSTERFINDER: A FRAMEWORK TO ASSIST CLUSTER INVESTIGATION WITH PATHOGEN GENOMIC ANALYSIS FOR RESPIRATORY VIRUSES

Stéphanie Dan (Hospices Civiles de Lyon, Lyon, France; Centre National de Référence virus des infections respiratoires)

Transmission dynamics & clusters

Poster

31. CO-CIRCULATING RESPIRATORY VIRUSES AND THEIR PHYLOGENIES IN SWITZERLAND: A CASE FOR GLOBAL REPRESENTATION?

Charlyne Bürki (ETH Zürich)

Genomics & bioinformatics

Poster

62. COMPARATIVE EVALUATION OF OPEN-SOURCE BIOINFORMATICS PIPELINES FOR FULL-LENGTH VIRAL GENOME ASSEMBLY

Viktor Müller (ELTE Eötvös Loránd University, Budapest)

Software, tools & methods

Poster

40. COMPARISON OF THE GENOMIC COMPOSITION OF ARCHIVED CLOTTING FACTORS FROM 1974 TO 1992 PRE- AND POST-VIRAL INACTIVATION

Ms Kaitlin Reid (University of Oxford)

Zoonoses & emerging infections

Poster

30. COMPREHENSIVE CHARACTERIZATION OF HIV-1 GENOME EVOLUTION REPRODUCIBILITY IN A LONG-TERM EXPERIMENT

Ali Movasati

Genomics & bioinformatics

Poster

10. Could a small cluster be a big one?: Using mean within-cluster pairwise genetic distance as a potential marker of undersampled clusters in viral transmission networks

Rocío Carrasco-Hernández (Instituto Nacional de Enfermedades Respiratorias)

Transmission dynamics & clusters

Poster

27. Description of HIV within-host cooperative behavior using a novel phylogenetic model of structured co-evolution

Andrea Ramirez

Within-host dynamics & adaptation

Poster

71. DESIGNING A VIRUS LIBRARY FOR ASCERTAINING INFECTIONS AND IDENTIFYING VIRAL EPITOPES IN A LONGITUDINAL COHORT

Manon Ragonnet-Cronin

Vaccines & immune escape

Poster

112. Disentangling fitness from sampling bias in sequence data

Alex Beams (Simon Fraser University)

Phylodynamics & phylogeography

Poster

91. DIVERSITY AND EVOLUTION OF RSV IN CHRONIC INFECTIONS

Aleksandr Kuznetsov (Biozentrum, University of Basel)

Within-host dynamics & adaptation

Poster

106. DOES BRANCHING NOW IMPLY BRANCHING NEXT? TESTING FOR EXCHANGEABILITY IN TIMED PHYLOGENIES

Jennifer McNichol (Simon Fraser University)

Phylodynamics & phylogeography

Poster

6. Ecological changes exacerbating the spread of invasive ticks has driven the dispersal of Severe fever with thrombocytopenia syndrome virus throughout southeast Asia

Lester Perez (Abbott Laboratories)

Zoonoses & emerging infections

Poster

63. EPIDEMIOLOGICAL ANALYSIS OF HIV IN FRANCE USING METAGENOMIC SEQUENCE DATA

Paul PETIT (Collège de France)

Phylodynamics & phylogeography

Poster

116. Evaluating the Stability of Phylogenetic Tree Inferences

Marius Brusselmans (KU Leuven)

Software, tools & methods

Poster

113. EXPLORING GENETIC SIGNATURES OF INFLUENZA A VIRUSES AT THE SWINE-HUMAN INTERFACE WITH PHYLOGENETIC AND ANCESTRAL SEQUENCE RECONSTRUCTION

Klara Marie Anker (Pandemic Sciences Institute, Nuffield Department of Medicine, University of Oxford, United Kingdom; Department of Virus and Microbiological Special Diagnostics, Statens Serum Institut, Copenhagen, Denmark)

Zoonoses & emerging infections

Poster

56. FACTORS AFFECTING VARIANT INVASION AND SPREAD IN AN ONGOING EPIDEMIC

Anjalika Nande (Johns Hopkins University)

Transmission dynamics & clusters

Poster

111. GENETIC CLUSTERING BY COMMUNITY DETECTION: CAN WE RESOLVE HIV-1 TRANSMISSION RISK STRUCTURE WITHIN GIANT COMPONENTS?

Paula Magbor (Western University)

Transmission dynamics & clusters

Poster

78. GENSPECTRUM: A DASHBOARD FRAMEWORK FOR GENOMIC EPIDEMIOLOGY

Chaoran Chen (ETH Zurich)

Software, tools & methods

Poster

9. GEOSPATIAL AND DEMOGRAPHIC PATTERNS OF SARS-COV-2 SPREAD IN MASSACHUSETTS FROM OVER 130,000 GENOMES

Gage Moreno (Broad Institute of MIT and Harvard)

Phylodynamics & phylogeography

Poster

99. HUMAN METAPNEUMOVIRUS PHYLOGENETIC ANALYSIS AND THE GENETIC DIVERSITY OF THE FUSION GENE AMONG PNEUMOVIRUSES

Isabel Joia (University of Basel)

Software, tools & methods

Poster

46. Identification of a new CRF02_AG/A3 circulating recombinant form of Moroccan origin that is expanding in Spain

Dr Michael Thomson (Centro Nacional de Microbiología. Instituto de Salud Carlos III)

Transmission dynamics & clusters

Poster

35. Incidence estimation from viral evolution

Maria Trofimova (Freie Universität Berlin, Robert Koch-Institut)

Software, tools & methods

Poster

75. Integrating Follicular Dendritic Cells and Spatial Dynamics to Improve HIV Modeling in Lymphoid Tissue

Sobia Anam

Within-host dynamics & adaptation

Poster

52. LEVERAGING ADVANCED PHYLOGENETIC APPROACHES TO UNDERSTAND THE HIV-1 TRANSMISSION AND EVOLUTIONARY DYNAMICS IN SERBIA

Dr Marina Siljic (Institute of Microbiology and Immunology, Department of Virology, Faculty of Medicine, University of Belgrade, Serbia)

Transmission dynamics & clusters

Poster

77. LOCULUS: AN OPEN-SOURCE SOFTWARE FOR MANAGING AND SHARING PATHOGEN SEQUENCING DATA

Dr Chaoran Chen (ETH Zürich)

Software, tools & methods

Poster

7. LONGITUDINAL TRACKING OF DOUBLY BARCODED HIV GENOMES FACILITATES QUANTITATION OF VIRAL DYNAMICS IN VIVO

Abigail M. Jackson (Harvard-MIT Health Sciences and Technology)

Vaccines & immune escape

Poster

108. MATHEMATICAL MODELLING TO HELP DESIGN VACCINE TRIALS, AND LASSA FEVER CASE STUDY

Chris Wymant (Pandemic Science Institute, University of Oxford)

Vaccines & immune escape

Poster

16. MECHANISMS UNDERLYING SARS-COV-2 TRANSMISSION BOTTLENECK SIZE

Katy Krupinsky (University of Michigan)

Within-host dynamics & adaptation

Poster

68. Modelling the HIV epidemic in France using virus genomic data

Louis Colliot (CIRB)

Transmission dynamics & clusters

Poster

79. Molecular design of more broadly neutralizing antibodies against HIV-1 using reliable machine learning models

Aime Bienfait Igiraneza (University of Oxford)

Vaccines & immune escape

Poster

12. MUTANT EMERGENCE TIMING AND POPULATION IMMUNISATION STATUS IMPACT EPIDEMIOLOGICAL DYNAMICS

Bastien Reyné (SISTM team, BPH (Inserm U1219, Inria, Univ. Bordeaux) ; Vaccine Research Institute, Faculté de Médicine, Université Paris-Est Créteil, Créteil, France ; MIVEGEC (Univ. Montpellier, CNRS, IRD))

Vaccines & immune escape

Poster

88. MUTATIONAL DYNAMICS OF SARS-COV-2 IN PATIENTS WITH PERSISTENT INFECTION

Alen Suljič (Institute of Microbiology and Immunology, Faculty of Medicine, University of Ljubljana), Ms Anja Ošep (Institute of Microbiology and Immunology, Faculty of Medicine, University of Ljubljana)

Within-host dynamics & adaptation

Poster

51. NETWORK-BASED CHARACTERIZATION OF ENDOGENOUS VIRAL ELEMENTS

Dr Laura Muñoz-Baena (University of Oxford)

Genomics & bioinformatics

Poster

57. NEWLY IDENTIFIED JINGMENVIRUS SEQUENCES FROM OPEN ACCESS NEXT-GENERATION SEQUENCING DATACONTRIBUTE TO PROPOSED TAXONOMIC CLASSIFICATION CRITERIA

Agathe Colmant (Unite des Virus Emergents (UVE: Aix-Marseille Univ, Universita di Corsica, IRD 190, Inserm 1207, IRBA), Marseille, France)

Zoonoses & emerging infections

Poster

23. NOVEL STRATEGY FOR WHOLE-GENOME SEQUENCING OF HEPATITIS A VIRUS USING NGS-ILLUMINA TECHNOLOGY AND PHYLOGENETIC COMPARISON WITH PARTIAL VP1/2A GENOMIC REGION

Maria Belen Pisano (Instituto de Virologia Dr. Vanella, Facultad de Ciencias Medicas, Universidad Nacional de Cordoba)

Software, tools & methods

Poster

15. OPTIMIZING DETECTION OF HIV-1 INFECTED CELLS: A NOVEL BIOINFORMATICS PIPELINE LEVERAGING KRAKEN2 FOR SINGLE-CELL MULTIOMICS DATASETS

Dr Lidia Garrido-Sanz (IrsiCaixa)

Genomics & bioinformatics

Poster

114. PATTERNS OF SARS-COV-2 VARIANT EVOLUTION ACROSS TIME

Cornelius Roemer (University of Basel and SIB)

Genomics & bioinformatics

Poster

53. Phylodynamic inference suggests introductions as main driver of Mpox Clade II outbreak in 2022 in Slovenia

Bastiaan Van der Roest (University Medical Center Utrecht, The Netherlands)

Phylodynamics & phylogeography

Poster

98. PHYLODYNAMICS OF DENGUE IN SINGAPORE

Conor O'Hare (Saw Swee Hock School of Public Health)

Phylodynamics & phylogeography

Poster

41. PHYLOGEOGRAPHIC ANALYSIS OF HIV TRANSMISSION INTO AND WITHIN MADAGASCAR

Sophie Lockwood (University of Chicago)

Phylodynamics & phylogeography

Poster

86. PHYLOGEOGRAPHY METHOD THAT ACCOUNTS FOR SAMPLING BIAS

Yexuan Song (Simon Fraser University)

Phylodynamics & phylogeography

Poster

121. Quantifying Uncertainty in HIV Transmission from Persons with Low-Level Viremia

Thayer Anderson (Johns Hopkins University)

Transmission dynamics & clusters

Poster

115. RECONSTRUCTING THE PAST TRANSMISSION DYNAMICS OF ENTEROVIRUS D68 WITH GENETIC SEQUENCE DATA

David Jorgensen (Imperial College London)

Zoonoses & emerging infections

Poster

73. Rise of the B.1.351/Beta variant within the UK: Unravelling its spread and growth

Charu Sharma (University of Oxford, UK)

Zoonoses & emerging infections

Poster

84. SARITA: A Large Language Model for Generating the S1 Subunit of the SARS-CoV-2 Spike

Simone Rancati (University of Pavia), Prof. Marco Salemi (University of Florida)

Software, tools & methods

Poster

48. SARS-CoV-2 Co-infections with Bacteria and Fungi in Symptomatic and Asymptomatic COVID-19 Patients in Rivers State, Nigeria.

Iheanyi Okonko (University of Port Harcourt, Choba, Port Harcourt, Rivers State, 500102 Nigeria.)

Zoonoses & emerging infections

Poster

50. SEMVS: AN END-TO-END HUMAN-INFLUENZA PROTEIN-PROTEIN INTERACTION PREDICTION FRAMEWORK WITH SAMPLING-ENHANCED DOUBLE-VIEW LEARNING

Prof. Marco Salemi (University of Florida)

Software, tools & methods

Poster

117. Short-term forecasting of COVID-19 hospital admissions using routine hospital data

Mr Martin Wohlfender (Institute of Social and Preventive Medicine, University of Bern, Bern, Switzerland)

Software, tools & methods

Poster

22. SHUMI: Simulating High-Throughput UMI-based Single-Genome Amplification and Sequencing Data

Pierce Radecki (Vaccine Research Center, National Institute of Allergy and Infectious Diseases, National Institutes of Health)

Software, tools & methods

Poster

28. SINGLE-CELL DNA SEQUENCING PROVIDES IMPROVED RESOLUTION OF RESERVOIR CONTRIBUTION TO HIV EVOLUTION AND REBOUND

Dr Brittany Magalis (University of Louisville)

Software, tools & methods

Poster

65. The interplay of within-host and between-host dynamics regulates HIV-1 epidemiological outcomes

Macauley Locke (Los Alamos National Laboratory)

Within-host dynamics & adaptation

Poster

95. THE MUTATION RATE OF SARS-COV-2 IS HIGHLY VARIABLE BETWEEN SITES AND IS INFLUENCED BY SEQUENCE CONTEXT, GENOMIC REGION, AND RNA STRUCTURE

Georg Angehrn (Biozentrum, University of Basel)

Genomics & bioinformatics

Poster

67. Transformers for EpiDemiological DYnamics: from genomic data to epidemiological parameters

Vincent Garot (CIRB / LCQB)

Genomics & bioinformatics

Poster

90. TRANSMISSION CLUSTER ANALYSIS OF DRUG RESISTANCE MUTATIONS IN HIV-1 SUBTYPE A6 IN THE FSU REGION

Anastasiia Nefedova (Nazarbayev University)

Transmission dynamics & clusters

Poster

109. UNRAVELING THE MEASLES PUZZLE: GENOTYPES SHIFTING LANDSCAPES, SELECTION AND EVOLUTION

Meriadeg Ar Gouilh (Université de Caen Normandie / CHU / INSERM1311 Dynamicure)

Phylodynamics & phylogeography

Poster

8. USING COMMUNITY TEST DATA TO INVESTIGATE THE WITHIN-HOST DYNAMICS OF SARS-COV-2

Florence Débarre (CNRS)

Software, tools & methods

Poster

32. USING TREE METRICS TO COMPUTE EFFECTIVE SAMPLE SIZE OF VIRAL OUTBREAK MODELS

Bradley Jones (Department of Mathematics, Simon Fraser University)

Software, tools & methods

Poster

11. USIR: An SIR model introducing Evolutionary Niche Expansion, potentially allowing for predictions of epidemic peaks even a few years ahead

Rocío Carrasco-Hernández (Instituto Nacional de Enfermedades Respiratorias)

Software, tools & methods

Poster

33. VARIANT CALLING AND HAPLOTYPE RESOLUTION IN AMPLIFIED HAPLOTYPE MIXTURES

Zoe Vance (University of Edinburgh)

Genomics & bioinformatics

Poster

103. Viral Simulation Reveals Overestimation Bias in Within-Host Phylodynamic Migration Rate Estimates Under Selection

Roland Regoes (ETH Zurich)

Phylodynamics & phylogeography

Poster

42. WASTEWATER-BASED GENOMIC SURVEILLANCE OF RESPIRATORIAL SYNCYTIAL VIRUS

Auguste Rimaite (1. Department of Biosystems Science and Engineering, ETH Zurich; 2. SIB Swiss Institute of Bioinformatics)

Genomics & bioinformatics

Poster

18. WAVESS: AN R PACKAGE WITHIN-HOST AGENT-BASED VIRAL EVOLUTION SEQUENCE SIMULATOR

Zena Lapp (Los Alamos National Laboratory)

Within-host dynamics & adaptation

Poster

92. Within-host human papillomavirus evolution in young women: insights from the PAPCLEAR longitudinal study

Mrs Rose Marin (CIRB, Collège de France)

Genomics & bioinformatics

Poster