CC
Caroline Colijn
Research areas: Mathematics · Applied Mathematics · Mathematical and Theoretical Epidemiology and Ecology Models · Tuberculosis Research and Epidemiology · Genomics and Phylogenetic Studies
0000-0001-6097-6708
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Publications (72)
- Taking a BREATH (Bayesian Reconstruction and Evolutionary Analysis of Transmission Histories) to simultaneously infer phylogenetic and transmission trees for partially sampled outbreaks Save
- ECHO: A lightweight tool for inferring missing case counts from pathogen phylogenies Save
- SAASI: Sampling Aware Ancestral State Inference Save
- Species-specific transformer models of bacterial gene order and content for genomic surveillance tasks Save
- An Extended Clade Framework for Annotated Trees in the Context of Phylogeography and Transmission Tree Inference Save
- The global phylogeography of rapidly expanding multidrug resistant Ural lineage 4.2 Mycobacterium tuberculosis Save
- Comparing methods to estimate time-varying reproduction numbers using genomic and epidemiological data Save
- Changing contact patterns in Newfoundland and Labrador, Canada in response to public health measures during the COVID-19 pandemic Save
- Drivers of COVID-19 variant wave dynamics: inferring oncoming wave size using global data with genomics Save
- Classification of unsequenced Mycobacterium tuberculosis strains in a high-burden setting using a pairwise logistic regression approach Save
- A vector representation for phylogenetic trees Save
- Classification of unsequenced Mycobacterium tuberculosis strains in a high-burden setting using a pairwise logistic regression approach Save
- Uncertainty in COVID-19 transmission could undermine our ability to predict long COVID Save
- The distribution of clade size in a coalescent diversification model Save
- e3SIM: epidemiological-ecological-evolutionary simulation framework for genomic epidemiology Save
- A new method for detecting mixedMycobacterium tuberculosisinfection and reconstructing constituent strains provides insights into transmission Save
- Early prediction ofMycobacterium tuberculosistransmission clusters using supervised learning models Save
- Signatures of transmission in within-hostM. tuberculosisvariation Save
- A method to estimate the serial interval distribution under partially-sampled data Save
- Effective population size in simple infectious disease models Save