Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

Theory of Attribution I: Correspondent Inference Theory01:15

Theory of Attribution I: Correspondent Inference Theory

564
Correspondent inference theory, proposed by Jones and Davis in 1965, seeks to explain how individuals infer stable personality traits from observed behaviors. It suggests that people attribute actions to underlying dispositions rather than external circumstances, particularly when the behavior appears intentional and socially significant.Voluntary Behavior and Dispositional AttributionAccording to this theory, individuals are more likely to attribute behavior to personal traits when it appears...
564
Protein Complex Assembly02:41

Protein Complex Assembly

16.8K
Proteins can form homomeric complexes with another unit of the same protein or heteromeric complexes with different types.  Most protein complexes self-assemble spontaneously via ordered pathways, while some proteins need assembly factors that guide their proper assembly. Despite the crowded intracellular environment, proteins usually interact with their correct partners and form functional complexes.
Many viruses self-assemble into a fully functional unit using the infected host cell to...
16.8K
Statistical Inference Techniques in Hypothesis Testing: Parametric Versus Nonparametric Data01:16

Statistical Inference Techniques in Hypothesis Testing: Parametric Versus Nonparametric Data

488
Statistical inference techniques, paramount in hypothesis testing, differentiate into two broad categories: parametric and nonparametric statistics.
Parametric statistics, as the name suggests, assumes that data follow a specific distribution, often a normal distribution. This assumption enables robust hypothesis testing and estimation. Parametric methods, like the Student's t-test or Goodness-of-fit test, are frequently employed in biostatistics due to their robustness. For instance,...
488
Protein Complexes with Interchangeable Parts01:57

Protein Complexes with Interchangeable Parts

2.9K
Groups of proteins may form a complex where each protein in this complex has a different role in the overall execution of the complex’s function. Often some of the proteins in the complex can be replaced by a closely related variant to give a complex that contains many of the same components yet is functionally distinct.
The SCF ubiquitin ligase is a protein complex of five individual proteins. This complex attaches ubiquitin to other target proteins to mark them for degradation. In order...
2.9K
Complex Numbers01:29

Complex Numbers

310
The real number system cannot represent the square root of a negative number, which restricts solutions for certain equations, such as quadratics with negative discriminants. To address this, the complex number system was developed, introducing the imaginary unit i, where i = √(-1). This extension allows for the representation of all roots, including those involving negative radicands.A complex number is written in the form x + yi, where x and y are real numbers. Here, x represents the...
310
Crystal Field Theory - Octahedral Complexes02:58

Crystal Field Theory - Octahedral Complexes

30.8K
Crystal Field Theory
To explain the observed behavior of transition metal complexes (such as colors), a model involving electrostatic interactions between the electrons from the ligands and the electrons in the unhybridized d orbitals of the central metal atom has been developed. This electrostatic model is crystal field theory (CFT). It helps to understand, interpret, and predict the colors, magnetic behavior, and some structures of coordination compounds of transition metals.
CFT focuses on...
30.8K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

DiagnoDating: diagnostics for dated phylogenies in microbial population genetics.

Molecular biology and evolution·2026
Same author

Evidence for circulation of high-virulence HIV-1 subtype B variants in the United Kingdom.

Virus evolution·2025
Same author

Sequencing HIV Diagnostic Samples to Detect Genetic Clusters and Assess Sequence Coverage Gaps.

Open forum infectious diseases·2025
Same author

Phylogenetic signatures reveal multilevel selection and fitness costs in SARS-CoV-2.

Wellcome open research·2024
Same author

An updated framework for SARS-CoV-2 variants reflects the unpredictability of viral evolution.

Nature medicine·2024
Same author

Strategy to develop broadly effective multivalent COVID-19 vaccines against emerging variants based on Ad5/35 platform.

Proceedings of the National Academy of Sciences of the United States of America·2024
Same journal

Another 10 years of PLOS Computational Biology: A data-driven reflection on trends in genomics research.

PLoS computational biology·2026
Same journal

Mobility data resolution needed to inform predictive models of spatial epidemic spread from mobile phone data.

PLoS computational biology·2026
Same journal

DeepMethylation: A deep learning framework for tissue-specific DNA methylation prediction and functional variant annotation.

PLoS computational biology·2026
Same journal

Redefining and estimating the early-phase reproduction ratio for epidemic outbreaks in spatially structured populations.

PLoS computational biology·2026
Same journal

Optimized phenotype definitions boost GWAS power.

PLoS computational biology·2026
Same journal

Detection, communication, and individual identification with deep audio embeddings: A case study with North Atlantic right whales.

PLoS computational biology·2026
See all related articles

Related Experiment Video

Updated: Feb 2, 2026

A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types
12:39

A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types

Published on: December 10, 2012

11.7K

Bayesian phylodynamic inference with complex models.

Erik M Volz1, Igor Siveroni1

  • 1Department of Infectious Disease Epidemiology and the MRC Centre for Global Infectious Disease Analysis, Imperial College London, London, United Kingdom.

Plos Computational Biology
|November 14, 2018
PubMed
Summary
This summary is machine-generated.

This study introduces a new framework for phylodynamic inference, enabling flexible modeling of epidemic processes using pathogen genetic data. The PhyDyn package enhances epidemic surveillance by estimating key epidemiological parameters from genetic sequences.

More Related Videos

Genotypic Inference of HIV-1 Tropism Using Population-based Sequencing of V3
11:10

Genotypic Inference of HIV-1 Tropism Using Population-based Sequencing of V3

Published on: December 27, 2010

12.8K
Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline
10:44

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline

Published on: December 7, 2021

2.6K

Related Experiment Videos

Last Updated: Feb 2, 2026

A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types
12:39

A Novel Bayesian Change-point Algorithm for Genome-wide Analysis of Diverse ChIPseq Data Types

Published on: December 10, 2012

11.7K
Genotypic Inference of HIV-1 Tropism Using Population-based Sequencing of V3
11:10

Genotypic Inference of HIV-1 Tropism Using Population-based Sequencing of V3

Published on: December 27, 2010

12.8K
Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline
10:44

Inherent Dynamics Visualizer, an Interactive Application for Evaluating and Visualizing Outputs from a Gene Regulatory Network Inference Pipeline

Published on: December 7, 2021

2.6K

Area of Science:

  • Evolutionary biology
  • Epidemiology
  • Computational biology

Background:

  • Bayesian phylogenetic inference benefits from population genetic models for realistic priors.
  • Phylodynamic inference estimates demographic parameters from pathogen genetic data, aiding epidemic surveillance.
  • Limited software and theory hinder fitting mechanistic models to genetic data.

Purpose of the Study:

  • To present a flexible framework for coalescent-based phylogenetic and phylodynamic inference.
  • To enable highly-flexible modeling of demographic and epidemiological processes.
  • To facilitate simultaneous estimation of phylogenies and model parameters from genetic data.

Main Methods:

  • Developed a framework building on structured coalescent approaches with enhanced speed, accuracy, and stability.
  • Introduced a flexible markup language for translating demographic/epidemiological models into structured coalescent models.
  • Integrated these approaches into the open-source PhyDyn package for the BEAST2 platform.

Main Results:

  • Demonstrated utility by fitting compartmental epidemiological models to Ebola and Influenza A virus sequence data.
  • Showcased the ability to infer crucial epidemic features like reproduction number and epidemic curves from genetic data.
  • The PhyDyn package provides a robust tool for advanced phylodynamic analyses.

Conclusions:

  • The presented framework significantly advances phylodynamic inference capabilities.
  • It bridges the gap between mechanistic epidemiological modeling and pathogen genetic data analysis.
  • PhyDyn offers a powerful, open-source solution for detailed epidemic analysis using genetic sequences.