<?xml version="1.0" encoding="utf-8" standalone="yes"?><rss version="2.0" xmlns:atom="http://www.w3.org/2005/Atom"><channel><title>David Alejandro Duchêne | Global Pathogen Analysis Platform (GPAP) AI Research</title><link>https://gpap-project.github.io/author/david-alejandro-duchene/</link><atom:link href="https://gpap-project.github.io/author/david-alejandro-duchene/index.xml" rel="self" type="application/rss+xml"/><description>David Alejandro Duchêne</description><generator>Hugo Blox Builder (https://hugoblox.com)</generator><language>en-us</language><lastBuildDate>Tue, 29 Sep 2026 00:00:00 +0000</lastBuildDate><image><url>https://gpap-project.github.io/media/logo.svg</url><title>David Alejandro Duchêne</title><link>https://gpap-project.github.io/author/david-alejandro-duchene/</link></image><item><title>Multiple drivers of genomic novelty across ruminants</title><link>https://gpap-project.github.io/publication/kavanagh-2026-multiple/</link><pubDate>Tue, 29 Sep 2026 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/kavanagh-2026-multiple/</guid><description/></item><item><title>Definitions and Metrics of Interdisciplinarity: A PRISMA-ScR Scoping Review Protocol</title><link>https://gpap-project.github.io/publication/christensen-2026-definitions/</link><pubDate>Fri, 24 Jul 2026 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/christensen-2026-definitions/</guid><description/></item><item><title>Large-scale genomic surveillance reveals immunosuppression drives mutation dynamics in persistent SARS-CoV-2 infections</title><link>https://gpap-project.github.io/publication/khurana-2026-large/</link><pubDate>Fri, 19 Jun 2026 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/khurana-2026-large/</guid><description/></item><item><title>Federated analysis of incubation period distributions using individual-level observed data and heterogeneous summary statistics</title><link>https://gpap-project.github.io/publication/morgenstern-2026-federated/</link><pubDate>Tue, 02 Jun 2026 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/morgenstern-2026-federated/</guid><description/></item><item><title>PlayClass: Automated Play Behaviour Classification in Poultry</title><link>https://gpap-project.github.io/publication/leow-2026-playclass/</link><pubDate>Tue, 26 May 2026 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/leow-2026-playclass/</guid><description/></item><item><title>Global approaches to infectious disease surveillance and modeling</title><link>https://gpap-project.github.io/publication/khurana-2026-global/</link><pubDate>Fri, 01 May 2026 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/khurana-2026-global/</guid><description/></item><item><title>SARS-CoV-2 reinfections and subsequent risk of hospital-diagnosed post-acute sequelae in Denmark (2020–2022): a nationwide cohort study</title><link>https://gpap-project.github.io/publication/khurana-2026-sars/</link><pubDate>Sat, 31 Jan 2026 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/khurana-2026-sars/</guid><description/></item><item><title>Transmission Networks and Intervention Effects From SARS-CoV-2 Genomic and Social Network Data in Denmark</title><link>https://gpap-project.github.io/publication/sebastian-2026-transmission/</link><pubDate>Sun, 11 Jan 2026 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/sebastian-2026-transmission/</guid><description/></item><item><title>phylo2vec: a library for vector-based phylogenetic tree manipulation</title><link>https://gpap-project.github.io/publication/scheidwasser-2025-phylo2vec/</link><pubDate>Tue, 28 Oct 2025 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/scheidwasser-2025-phylo2vec/</guid><description/></item><item><title>Deep learning from videography as a tool for measuring E. coli infection in poultry</title><link>https://gpap-project.github.io/publication/scheidwasser-2025-deep/</link><pubDate>Wed, 01 Oct 2025 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/scheidwasser-2025-deep/</guid><description/></item><item><title>Estimating the worst-case scenario for malaria parasite rate in sub-Saharan Africa</title><link>https://gpap-project.github.io/publication/chakradeo-2025-estimating/</link><pubDate>Fri, 16 May 2025 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/chakradeo-2025-estimating/</guid><description/></item><item><title>Distinct evolutionary regimes across domains of the Plasmodium falciparum CSP gene</title><link>https://gpap-project.github.io/publication/kaisy-2025-distinct/</link><pubDate>Fri, 18 Apr 2025 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/kaisy-2025-distinct/</guid><description/></item><item><title>Drivers of avian genomic change revealed by evolutionary rate decomposition</title><link>https://gpap-project.github.io/publication/duchene-2025-drivers/</link><pubDate>Wed, 19 Mar 2025 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/duchene-2025-drivers/</guid><description/></item><item><title>Artificial intelligence for modelling infectious disease epidemics</title><link>https://gpap-project.github.io/publication/kraemer-2025-artificial/</link><pubDate>Wed, 19 Feb 2025 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/kraemer-2025-artificial/</guid><description/></item><item><title>Generalised Bayesian distance-based phylogenetics for the genomics era</title><link>https://gpap-project.github.io/publication/j-2025-generalised/</link><pubDate>Thu, 06 Feb 2025 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/j-2025-generalised/</guid><description/></item><item><title>Bayesian Inference of Phylogenetic Distances: Revisiting the Eigenvalue Approach</title><link>https://gpap-project.github.io/publication/penn-2025-bayesian/</link><pubDate>Thu, 23 Jan 2025 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/penn-2025-bayesian/</guid><description/></item><item><title>Climate Change and Malaria: A Call for Robust Analytics</title><link>https://gpap-project.github.io/publication/laydon-2024-climate/</link><pubDate>Wed, 18 Sep 2024 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/laydon-2024-climate/</guid><description/></item><item><title>Phylo2Vec: A Vector Representation for Binary Trees</title><link>https://gpap-project.github.io/publication/penn-2024-phylo2vec/</link><pubDate>Wed, 26 Jun 2024 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/penn-2024-phylo2vec/</guid><description/></item><item><title>The Limits of the Constant-rate Birth–Death Prior for Phylogenetic Tree Topology Inference</title><link>https://gpap-project.github.io/publication/khurana-2023-limits-2/</link><pubDate>Thu, 28 Dec 2023 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/khurana-2023-limits-2/</guid><description/></item><item><title>Leaping through Tree Space: Continuous Phylogenetic Inference for Rooted and Unrooted Trees</title><link>https://gpap-project.github.io/publication/penn-2023-leaping/</link><pubDate>Fri, 01 Dec 2023 00:00:00 +0000</pubDate><guid>https://gpap-project.github.io/publication/penn-2023-leaping/</guid><description/></item></channel></rss>