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

Survival Tree01:19

Survival Tree

Survival trees are a non-parametric method used in survival analysis to model the relationship between a set of covariates and the time until an event of interest occurs, often referred to as the "time-to-event" or "survival time." This method is particularly useful when dealing with censored data, where the event has not occurred for some individuals by the end of the study period, or when the exact time of the event is unknown.
 Building a Survival Tree
Constructing a survival tree begins...
Distance Problem01:29

Distance Problem

When an object's velocity changes over time, the total distance traveled can be determined by summing small displacement intervals over short increments. This approach approximates the true distance through numerical summation and the use of integral calculus. An estimate of the total displacement can be obtained by measuring velocity at regular intervals and multiplying each value by the corresponding time step.If a runner accelerates over the first three seconds of a race, speed measurements...
Phylogenetic Trees03:21

Phylogenetic Trees

Phylogenetic trees come in many forms. It matters in which sequence the organisms are arranged from the bottom to the top of the tree, but the branches can rotate at their nodes without altering the information. The lines connecting individual nodes can be straight, angled, or even curved.
Phylogenetic Trees03:21

Phylogenetic Trees

Phylogenetic trees come in many forms. It matters in which sequence the organisms are arranged from the bottom to the top of the tree, but the branches can rotate at their nodes without altering the information. The lines connecting individual nodes can be straight, angled, or even curved.
Deductive Reasoning01:16

Deductive Reasoning

Deductive reasoning, or deduction, is the type of logic used in hypothesis-based science. In deductive reasoning, the pattern of thinking moves in the opposite direction as compared to inductive reasoning, which means that it uses a general principle or law to predict specific results. From those general principles, a scientist can deduce and predict the specific results that would be valid as long as the general principles are valid.
For example, a researcher can deduce specific predictions...
Evolutionary Relationships through Genome Comparisons02:54

Evolutionary Relationships through Genome Comparisons

Genome comparison is one of the excellent ways to interpret the evolutionary relationships between organisms. The basic principle of genome comparison is that if two species share a common feature, it is likely encoded by the DNA sequence conserved between both species. The advent of genome sequencing technologies in the late 20th century enabled scientists to understand the concept of conservation of domains between species and helped them to deduce evolutionary relationships across diverse...

You might also read

Related Articles

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

Sort by
Same author

PhyloCNN: Improving Tree Representation and Neural Network Architecture for Deep Learning from Trees in Phylodynamics and Diversification Studies.

Systematic biology·2025
Same author

Algorithms to reconstruct past indels: The deletion-only parsimony problem.

PLoS computational biology·2025
Same author

Link between the Birth-Death Process and the Kingman Coalescent-Applications to Phylogenetic Epidemiology.

Systematic biology·2025
Same author

Accelerating Maximum Likelihood Phylogenetic Inference via Early Stopping to Evade (Over-)optimization.

Systematic biology·2025
Same author

Accounting for contact tracing in epidemiological birth-death models.

PLoS computational biology·2025
Same author

multistrap: boosting phylogenetic analyses with structural information.

Nature communications·2025
Same journal

The TaMYB55-TaSnRK1α1-TabZIP9 module confers heat stress tolerance in wheat.

Proceedings of the National Academy of Sciences of the United States of America·2026
Same journal

Superstatistics approach to turbulent circulation fluctuations.

Proceedings of the National Academy of Sciences of the United States of America·2026
Same journal

A molecular timescale for evolution of cobamide biosynthesis.

Proceedings of the National Academy of Sciences of the United States of America·2026
Same journal

Pierre Chambon, a pioneer of molecular biology and gene regulation in eukaryotes.

Proceedings of the National Academy of Sciences of the United States of America·2026
Same journal

Granulosa cell glycogen fuels the avascular corpus luteum.

Proceedings of the National Academy of Sciences of the United States of America·2026
Same journal

Synthetic essentiality of TRAIL/TNFSF10 in VHL-deficient renal cell carcinoma.

Proceedings of the National Academy of Sciences of the United States of America·2026
See all related articles

Related Experiment Video

Updated: May 18, 2026

Tree Core Analysis with X-ray Computed Tomography
06:56

Tree Core Analysis with X-ray Computed Tomography

Published on: September 22, 2023

Combinatorics of distance-based tree inference.

Fabio Pardi1, Olivier Gascuel

  • 1Institut de Biologie Computationelle, Laboratoire d'Informatique, de Robotique et de Microélectronique de Montpellier, Centre National de la Recherche Scientifique, Université Montpellier II, Montpellier, France. pardi@lirmm.fr

Proceedings of the National Academy of Sciences of the United States of America
|September 27, 2012
PubMed
Summary
This summary is machine-generated.

This study introduces general formulae for calculating optimal branch lengths in phylogenetic trees. These formulae ensure accurate tree reconstruction from distance data and enable efficient tree rearrangement calculations.

More Related Videos

A Practical Guide to Phylogenetics for Nonexperts
12:00

A Practical Guide to Phylogenetics for Nonexperts

Published on: February 5, 2014

Large-scale Reconstructions and Independent, Unbiased Clustering Based on Morphological Metrics to Classify Neurons in Selective Populations
12:27

Large-scale Reconstructions and Independent, Unbiased Clustering Based on Morphological Metrics to Classify Neurons in Selective Populations

Published on: February 15, 2017

Related Experiment Videos

Last Updated: May 18, 2026

Tree Core Analysis with X-ray Computed Tomography
06:56

Tree Core Analysis with X-ray Computed Tomography

Published on: September 22, 2023

A Practical Guide to Phylogenetics for Nonexperts
12:00

A Practical Guide to Phylogenetics for Nonexperts

Published on: February 5, 2014

Large-scale Reconstructions and Independent, Unbiased Clustering Based on Morphological Metrics to Classify Neurons in Selective Populations
12:27

Large-scale Reconstructions and Independent, Unbiased Clustering Based on Morphological Metrics to Classify Neurons in Selective Populations

Published on: February 15, 2017

Area of Science:

  • Computational Biology
  • Phylogenetics
  • Data Analysis

Background:

  • Phylogenetic inference methods often rely on pairwise distances between taxa.
  • Constructing trees with branch lengths that match input distances is a key objective.

Purpose of the Study:

  • To define general formulae for optimal branch lengths in phylogenetic trees.
  • To establish desirable properties of these formulae for tree reconstruction and analysis.

Main Methods:

  • Defining a general form for combinatorial formulae for branch lengths.
  • Analyzing the consistency and computational efficiency of these formulae.

Main Results:

  • The formulae guarantee correct tree inference with sufficient data (consistency).
  • Branch lengths for tree rearrangements can be calculated efficiently in quadratic time.

Conclusions:

  • The developed formulae provide a basis for novel algorithms in phylogenetic tree reconstruction.
  • This work enhances the efficiency and accuracy of inferring evolutionary relationships from distance data.