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1. SARS-CoV-2 lineage dynamics in England from September to November 2021: high diversity of Delta sub-lineages and increased transmissibility of AY.4.2

2. Genomic reconstruction of the SARS-CoV-2 epidemic in England

3. An integrated national scale SARS-CoV-2 genomic surveillance network

4. Comparison of cluster-based and source-attribution methods for estimating transmission risk using large HIV sequence databases

5. Sampling through time and phylodynamic inference with coalescent and birth-death models

6. Genomic reconstruction of the SARS-CoV-2 epidemic in England

7. Investigation of hospital discharge cases and SARS-CoV-2 introduction into Lothian care homes

8. SARS-CoV-2 lineage dynamics in England from September to November 2021: high diversity of Delta sub-lineages and increased transmissibility of AY.4.2

9. COVID-19 due to the B.1.617.2 (Delta) variant compared to B.1.1.7 (Alpha) variant of SARS-CoV-2: a prospective observational cohort study

10. The SARS-CoV-2 Alpha variant was associated with increased clinical severity of COVID-19 in Scotland: A genomics-based retrospective cohort analysis

11. Tracking SARS-CoV-2 mutations and variants through the COG-UK-Mutation Explorer

12. Spatial growth rate of emerging SARS-CoV-2 lineages in England, September 2020-December 2021

13. Assessing transmission attribution risk from simulated sequencing data in HIV molecular epidemiology.

14. Phylogenomic early warning signals for SARS-CoV-2 epidemic waves.

15. Model design for nonparametric phylodynamic inference and applications to pathogen surveillance.

16. An early warning system for emerging SARS-CoV-2 variants.

17. Non-pharmaceutical interventions, vaccination, and the SARS-CoV-2 delta variant in England: a mathematical modelling study.

18. Model design for non-parametric phylodynamic inference and applications to pathogen surveillance.

19. Molecular Evolution of Human Norovirus GII.2 Clusters.

20. Genomic epidemiology of a densely sampled COVID-19 outbreak in China.

21. Establishment and lineage dynamics of the SARS-CoV-2 epidemic in the UK.

22. Additive Uncorrelated Relaxed Clock Models for the Dating of Genomic Epidemiology Phylogenies.

23. Sequencing identifies multiple early introductions of SARS-CoV-2 to the New York City region.

26. Identification of Hidden Population Structure in Time-Scaled Phylogenies.

27. Phylodynamic analysis of HIV-1 subtypes B, C and CRF 02_AG in Senegal.

28. HIV-1 Transmission Patterns in Men Who Have Sex with Men: Insights from Genetic Source Attribution Analysis.

29. Bayesian phylodynamic inference with complex models.

30. Modeling the Growth and Decline of Pathogen Effective Population Size Provides Insight into Epidemic Dynamics and Drivers of Antimicrobial Resistance.

31. Comparison of cluster-based and source-attribution methods for estimating transmission risk using large HIV sequence databases.

32. Magnetic Macroporous Hydrogels as a Novel Approach for Perfused Stem Cell Culture in 3D Scaffolds via Contactless Motion Control.

33. Molecular Epidemiology of HIV-1 Subtype B Reveals Heterogeneous Transmission Risk: Implications for Intervention and Control.

34. Phylodynamic analysis to inform prevention efforts in mixed HIV epidemics.

35. Phylodynamic Inference across Epidemic Scales.

36. Sampling through time and phylodynamic inference with coalescent and birth-death models.

37. Phylodynamic inference for structured epidemiological models.

38. A generating function approach to HIV transmission with dynamic contact rates.

39. HIV-1 transmission during early infection in men who have sex with men: a phylodynamic analysis.

40. Model hierarchies in edge-based compartmental modeling for infectious disease spread.

41. Share2Quit: Web-Based Peer-Driven Referrals for Smoking Cessation.

42. Incorporating disease and population structure into models of SIR disease in contact networks.

43. Detectable signals of episodic risk effects on acute HIV transmission: strategies for analyzing transmission systems using genetic data.

44. Modelling tree shape and structure in viral phylodynamics.

45. Viral phylodynamics.

46. Inferring the source of transmission with phylogenetic data.

47. Heterogeneity in Number and Type of Sexual Contacts in a Gay Urban Cohort.

48. Episodic HIV Risk Behavior Can Greatly Amplify HIV Prevalence and the Fraction of Transmissions from Acute HIV Infection.

49. Edge-based compartmental modelling for infectious disease spread.

50. Complex population dynamics and the coalescent under neutrality.

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