Caroline Colijn
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Canadian mathematician and epidemiologist
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Caroline Colijnmathematics Degrees
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Medical Mathematics
Caroline Colijn's Degrees
- PhD Mathematics University of British Columbia
- Bachelors Mathematics University of Victoria
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Why Is Caroline Colijn Influential?
(Suggest an Edit or Addition)According to Wikipedia, Caroline Colijn is a Canadian mathematician and epidemiologist. She holds a Canada 150 Research Chair in Mathematics for Evolution, Infection and Public Health at Simon Fraser University . Early life and education Colijn earned her undergraduate degree from the University of British Columbia before enrolling at York University for her Master's degree in environmental studies and the University of Waterloo for her PhD. She completed her post-doctoral training with Michael Mackey at McGill University and later studied epidemiology with Megan Murray at the Harvard T.H. Chan School of Public Health.
Caroline Colijn's Published Works
Number of citations in a given year to any of this author's works
Total number of citations to an author for the works they published in a given year. This highlights publication of the most important work(s) by the author
Published Works
- Interpreting Expression Data with Metabolic Flux Models: Predicting Mycobacterium tuberculosis Mycolic Acid Production (2009) (370)
- Effects of smoking and solid-fuel use on COPD, lung cancer, and tuberculosis in China: a time-based, multiple risk factor, modelling study (2008) (283)
- Transmission interval estimates suggest pre-symptomatic spread of COVID-19 (2020) (236)
- Evidence for transmission of COVID-19 prior to symptom onset (2020) (222)
- Bayesian Inference of Infectious Disease Transmission from Whole-Genome Sequence Data (2014) (184)
- The origins and potential future of SARS-CoV-2 variants of concern in the evolving COVID-19 pandemic (2021) (182)
- Whole-Genome Sequencing for Routine Pathogen Surveillance in Public Health: a Population Snapshot of Invasive Staphylococcus aureus in Europe (2016) (173)
- Genomic Infectious Disease Epidemiology in Partially Sampled and Ongoing Outbreaks (2016) (169)
- Mixed-Strain Mycobacterium tuberculosis Infections and the Implications for Tuberculosis Treatment and Control (2012) (166)
- Exogenous re-infection and the dynamics of tuberculosis epidemics: local effects in a network model of transmission (2007) (147)
- No coexistence for free: neutral null models for multistrain pathogens. (2009) (142)
- Antimicrobials: a global alliance for optimizing their rational use in intra-abdominal infections (AGORA) (2016) (123)
- treespace: Statistical exploration of landscapes of phylogenetic trees (2017) (120)
- Interpreting whole genome sequencing for investigating tuberculosis transmission: a systematic review (2016) (100)
- Spontaneous Emergence of Multiple Drug Resistance in Tuberculosis before and during Therapy (2011) (90)
- Beyond the SNP threshold: identifying outbreak clusters using inferred transmissions (2018) (87)
- Simultaneous inference of phylogenetic and transmission trees in infectious disease outbreaks (2017) (84)
- What is the mechanism for persistent coexistence of drug-susceptible and drug-resistant strains of Streptococcus pneumoniae? (2009) (78)
- Mapping Phylogenetic Trees to Reveal Distinct Patterns of Evolution (2015) (76)
- Phylogenetic tree shapes resolve disease transmission patterns (2014) (72)
- Internal migration and transmission dynamics of tuberculosis in Shanghai, China: an epidemiological, spatial, genomic analysis. (2018) (63)
- Modelling meningococcal meningitis in the African meningitis belt (2011) (61)
- Humoral Response Dynamics Following Infection with SARS-CoV-2 (2020) (53)
- A tree metric using structure and length to capture distinct phylogenetic signals (2015) (53)
- Phylogenetic Tools for Generalized HIV-1 Epidemics: Findings from the PANGEA-HIV Methods Comparison (2016) (52)
- Challenges in estimating the total burden of drug-resistant tuberculosis. (2008) (51)
- Quantifying the impact of COVID-19 control measures using a Bayesian model of physical distancing (2020) (51)
- Evaluating strategies for control of tuberculosis in prisons and prevention of spillover into communities: An observational and modeling study from Brazil (2019) (49)
- Community-Wide Isoniazid Preventive Therapy Drives Drug-Resistant Tuberculosis: A Model-Based Analysis (2013) (47)
- High-resolution mapping of tuberculosis transmission: Whole genome sequencing and phylogenetic modelling of a cohort from Valencia Region, Spain (2019) (46)
- Vaccine rollout strategies: The case for vaccinating essential workers early (2021) (45)
- Event-specific interventions to minimize COVID-19 transmission (2020) (45)
- The Distribution of Fitness Costs of Resistance-Conferring Mutations Is a Key Determinant for the Future Burden of Drug-Resistant Tuberculosis: A Model-Based Analysis. (2015) (44)
- How the Dynamics and Structure of Sexual Contact Networks Shape Pathogen Phylogenies (2013) (43)
- Modeling the effects of strain diversity and mechanisms of strain competition on the potential performance of new tuberculosis vaccines (2008) (43)
- OutbreakTools: A new platform for disease outbreak analysis using the R software (2014) (41)
- A Metric on Phylogenetic Tree Shapes (2017) (40)
- MATHEMATICAL MODELS OF TUBERCULOSIS: ACCOMPLISHMENTS AND FUTURE CHALLENGES (2007) (40)
- Emergent heterogeneity in declining tuberculosis epidemics. (2007) (40)
- How competition governs whether moderate or aggressive treatment minimizes antibiotic resistance (2015) (38)
- Evaluation of phylogenetic reconstruction methods using bacterial whole genomes: a simulation based study (2018) (38)
- Mathematical modelling for antibiotic resistance control policy: do we know enough? (2019) (37)
- Mathematical models of the epidemiology and control of drug-resistant TB (2009) (37)
- Importance of COVID-19 vaccine efficacy in older age groups (2021) (36)
- Errors in reported degrees and respondent driven sampling: Implications for bias☆ (2014) (36)
- Modeling the Dynamic Relationship Between HIV and the Risk of Drug-Resistant Tuberculosis (2012) (36)
- Latent Coinfection and the Maintenance of Strain Diversity (2009) (35)
- Estimating the impact of COVID-19 control measures using a Bayesian model of physical distancing (2020) (34)
- Host population structure and treatment frequency maintain balancing selection on drug resistance (2017) (33)
- Models to understand the population-level impact of mixed strain M. tuberculosis infections. (2011) (33)
- The dynamics of sexual contact networks: effects on disease spread and control. (2012) (32)
- A phylogeny-based sampling strategy and power calculator informs genome-wide associations study design for microbial pathogens (2014) (31)
- COVID-19 in schools: Mitigating classroom clusters in the context of variable transmission (2021) (30)
- Modelling the performance of isoniazid preventive therapy for reducing tuberculosis in HIV endemic settings: the effects of network structure (2011) (28)
- Influenza and RSV make a modest contribution to invasive pneumococcal disease incidence in the UK (2013) (28)
- Designing ecologically optimized pneumococcal vaccines using population genomics (2020) (27)
- Declaring a tuberculosis outbreak over with genomic epidemiology (2016) (26)
- Are Survey-Based Estimates of the Burden of Drug Resistant TB Too Low? Insight from a Simulation Study (2008) (23)
- Inferring Carbon Sources from Gene Expression Profiles Using Metabolic Flux Models (2012) (23)
- HIV transmission from drug injectors to partners who do not inject, and beyond: modelling the potential for a generalized heterosexual epidemic in St. Petersburg, Russia. (2013) (23)
- Respondent driven sampling and community structure in a population of injecting drug users, Bristol, UK. (2012) (23)
- Convergent evolution and topologically disruptive polymorphisms among multidrug-resistant tuberculosis in Peru (2017) (22)
- Analysis of complex metabolic behavior through pathway decomposition (2011) (21)
- HIV-1 Full-Genome Phylogenetics of Generalized Epidemics in Sub-Saharan Africa: Impact of Missing Nucleotide Characters in Next-Generation Sequences (2017) (20)
- Long-Term Persistence of Spike Protein Antibody and Predictive Modeling of Antibody Dynamics After Infection With Severe Acute Respiratory Syndrome Coronavirus 2 (2021) (20)
- Statistical Exploration of Landscapes of Phylogenetic Trees (2015) (19)
- How could preventive therapy affect the prevalence of drug resistance? Causes and consequences (2015) (19)
- Magnitude and sources of bias in the detection of mixed strain M. tuberculosis infection (2014) (19)
- Genomic variant-identification methods may alter Mycobacterium tuberculosis transmission inferences (2020) (19)
- Phylogenies from dynamic networks (2019) (17)
- ClassTR: Classifying Within-Host Heterogeneity Based on Tandem Repeats with Application to Mycobacterium tuberculosis Infections (2016) (16)
- Correction: Inferring Carbon Sources from Gene Expression Profiles Using Metabolic Flux Models (2012) (15)
- How much leeway is there to relax COVID-19 control measures? (2020) (15)
- Long-Term Persistence of Spike Antibody and Predictive Modeling of Antibody Dynamics Following Infection with SARS-CoV-2 (2020) (14)
- Whole-genome sequencing of Mycobacterium tuberculosis for rapid diagnostics and beyond. (2016) (14)
- Estimating transmission from genetic and epidemiological data: a metric to compare transmission trees (2016) (13)
- Transmission Trees on a Known Pathogen Phylogeny: Enumeration and Sampling (2018) (12)
- Genome-based transmission modelling separates imported tuberculosis from recent transmission within an immigrant population (2018) (12)
- Spatio-temporal analysis of tuberculous infection risk among clients of a homeless shelter during an outbreak. (2015) (12)
- Negative frequency-dependent selection and asymmetrical transformation stabilise multi-strain bacterial population structures (2020) (12)
- COVID-19's unfortunate events in schools: mitigating classroom clusters in the context of variable transmission (2020) (11)
- Modelling the impact of household size distribution on the transmission dynamics of COVID-19 (2021) (11)
- Asymptotic frequency of shapes in supercritical branching trees (2015) (10)
- Fundamental Limitations of Contact Tracing for COVID-19 (2020) (10)
- Competition, coinfection and strain replacement in models of Bordetella pertussis. (2015) (10)
- The role of prisons in disseminating tuberculosis in Brazil: A genomic epidemiology study (2022) (9)
- Phylogeography and transmission of M. tuberculosis in Moldova: A prospective genomic analysis (2022) (9)
- Pathogen spread on coupled networks: effect of host and network properties on transmission thresholds. (2013) (9)
- Network science inspires novel tree shape statistics (2019) (8)
- The cost-effectiveness of alternative vaccination strategies for polyvalent meningococcal vaccines in Burkina Faso: A transmission dynamic modeling study (2018) (8)
- Mathematical modeling of COVID-19 in British Columbia: An age-structured model with time-dependent contact rates (2021) (7)
- Designing ecologically-optimised vaccines using population genomics (2019) (7)
- Genome-based transmission modeling separates imported tuberculosis from recent transmission within an immigrant population (2017) (6)
- New method to reconstruct phylogenetic and transmission trees with sequence data from infectious disease outbreaks (2016) (6)
- A curated genome-scale metabolic model of Bordetella pertussis metabolism (2017) (6)
- Erratum: Antimicrobials: A global alliance for optimizing their rational use in intra-abdominal infections (AGORA). [World J Emerg Surg. 11, (2016) (33)] DOI: 10.1186/s13017-016-0089-y (2017) (6)
- Systematic comparison of coexistence in models of drug-sensitive and drug-resistant pathogen strains. (2019) (6)
- Evolution and emergence of multidrug-resistant Mycobacterium tuberculosis in Chisinau, Moldova (2021) (6)
- Transmission analysis of a large tuberculosis outbreak in London: a mathematical modelling study using genomic data (2020) (6)
- Comparing phylogenetic trees according to tip label categories (2018) (6)
- Predicting the short-term success of human influenza virus variants with machine learning (2020) (6)
- The need for linked genomic surveillance of SARS-CoV-2. (2022) (5)
- Transmission dynamics are crucial to COVID-19 vaccination policy (2021) (5)
- Genomic variant identification methods alter Mycobacterium tuberculosis transmission inference (2019) (5)
- Polynomial Phylogenetic Analysis of Tree Shapes (2020) (5)
- Effects of memory on the shapes of simple outbreak trees (2016) (4)
- Response to Comment on “Community-Wide Isoniazid Preventive Therapy Drives Drug-Resistant Tuberculosis: A Model-Based Analysis” (2013) (4)
- The potential of genomics for infectious disease forecasting (2022) (4)
- Population-based sequencing of Mycobacterium tuberculosis reveals how current population dynamics are shaped by past epidemics (2022) (4)
- Analyzing Phylogenetic Trees with a Tree Lattice Coordinate System and a Graph Polynomial. (2022) (4)
- Diverse drug-resistant subpopulations of Mycobacterium tuberculosis are sustained in continuous culture (2016) (4)
- Erratum to: Antimicrobials: a global alliance for optimizing their rational use in intra-abdominal infections (AGORA) (2017) (4)
- Long time frames to detect the impact of changing COVID-19 control measures (2020) (4)
- Predicting the short-term success of human influenza A variants with machine learning (2019) (3)
- Genomic evidence for prisons as amplifiers of community tuberculosis epidemics (2021) (3)
- Phylogeography and transmission of M. tuberculosis in Moldova (2021) (3)
- COVID-19 endgame: From pandemic to endemic? Vaccination, reopening and evolution in low- and high-vaccinated populations (2022) (3)
- Author response: Evidence for transmission of COVID-19 prior to symptom onset (2020) (3)
- The impact of sampling bias on viral phylogeographic reconstruction (2022) (3)
- Genomic epidemiology offers high resolution estimates of serial intervals for COVID-19 (2022) (2)
- Projected spread of COVID-19's second wave in South Africa under different levels of lockdown (2021) (2)
- Informed Choices: How to Calibrate ABC with Hypothesis Testing (2018) (2)
- Deep clustering of bacterial tree images (2022) (2)
- Bayesian inference of infectious disease transmission from whole genome sequence data (2013) (2)
- Statistical methods for analyzing spatially-referenced paired genetic relatedness data (2021) (2)
- Gene-centric constraint of metabolic models (2017) (2)
- Spike Mutation Profiles Associated With SARS-CoV-2 Breakthrough Infections in Delta Emerging and Predominant Time Periods in British Columbia, Canada (2022) (1)
- A full characterization of evolutionary tree topologies (2016) (1)
- Correction: Evaluating strategies for control of tuberculosis in prisons and prevention of spillover into communities: An observational and modeling study from Brazil (2019) (1)
- Quantifying transmissibility of SARS-CoV-2 and impact of intervention within long-term healthcare facilities (2022) (1)
- Methods for Outbreaks Using Genomic Data (2019) (1)
- Spatial modeling of dyadic genetic relatedness data: Identifying factors associated with M. tuberculosis transmission in Moldova (2021) (1)
- Mathematical Modeling of Tuberculosis Transmission Dynamics (2017) (1)
- Long-Term Persistence of Spike Antibody and Predictive Modeling of Antibody Dynamics Following Infection with SARS-CoV-2. (2021) (1)
- Estimation of SARS‐CoV‐2 antibody prevalence through serological uncertainty and daily incidence (2022) (0)
- Rinat Sergeev Drug-Resistant Tuberculosis Modeling the Dynamic Relationship Between HIV and the Risk of (2012) (0)
- OP-MOLB160219 185..203 (2016) (0)
- A Fast and Scalable Method for Inferring Phylogenetic Networks from Trees by Aligning Lineage Taxon Strings (2023) (0)
- Erratum: Correction: Evaluating strategies for control of tuberculosis in prisons and prevention of spillover into communities: An observational and modeling study from Brazil (PLoS medicine (2019) 16 1 (e1002737)) (2019) (0)
- resistance? Causes and consequences. Phil. (2015) (0)
- COVID-19 cluster size and transmission rates in schools from crowdsourced case reports (2022) (0)
- Quantifying transmissibility of COVID-19 and impact of intervention within long-term health care facilities (2021) (0)
- Characterising indel diversity in a large Mycobacterium tuberculosis outbreak – implications for transmission reconstruction (2022) (0)
- Does Current Drug Resistance Surveillance Provide Useful Information in Tuberculosis (2009) (0)
- Jombart, T. et al. (2014) OutbreakTools: a new platform for disease (2014) (0)
- Transmission analysis of a large TB outbreak in London: mathematical modelling study using genomic data (2019) (0)
- Using Whole Genome Sequencing to Decode Mycobacterium tuberculosis Transmission: application in a low-burden country (2019) (0)
- A phylogeny-based sampling strategy and power calculator informs genome-wide associations study design for microbial pathogens (2014) (0)
- Procedures for enumerating and uniformly sampling transmission trees for a known phylogeny (2017) (0)
- Long time frames to detect the impact of changing COVID-19 measures, Canada, March to July 2020 (2021) (0)
- Cov2clusters: genomic clustering of SARS-CoV-2 sequences (2022) (0)
- COVID-19 endgame: from pandemic to endemic? Vaccination, reopening and evolution in a well-vaccinated population (2021) (0)
- COVID-19 clusters in schools: frequency, size, and transmission rates from crowdsourced exposure reports (2021) (0)
- Estimation of SARS-CoV-2 antibody prevalence through integration of serology and incidence data (2021) (0)
- Designing ecologically optimized pneumococcal vaccines using population genomics (2020) (0)
- Epidemiological cluster identification using multiple data sources: an approach using logistic regression (2023) (0)
- Crump-Mode-Jagers branching processes in disease outbreaks (2014) (0)
- Phylodynamics without trees: estimating R0 directly from pathogen sequences (2017) (0)
- Spatial modeling of M. tuberculosis transmission with dyadic genetic relatedness data. (2023) (0)
- Genome-Wide Association with Uncertainty in the Genetic Similarity Matrix (2022) (0)
- Supplementary material from "Predicting the short-term success of human influenza virus variants with machine learning" (2020) (0)
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