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Related Concept Videos

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.The length of the branches can depict time or the relative amount of change among organisms. For instance, the branch length might indicate the number of amino acid changes in the sequence that underlies the...
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.The length of the branches can depict time or the relative amount of change among organisms. For instance, the branch length might indicate the number of amino acid changes in the sequence that underlies the...
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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.
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Microbial Phylogeny01:28

Microbial Phylogeny

Understanding the evolutionary relationships among microorganisms is fundamental to microbial ecology and taxonomy. Phylogenetic trees are essential tools for inferring these relationships, relying primarily on comparative analyses of molecular sequences such as DNA, RNA, or proteins. In microbial studies, these trees typically depict the evolutionary paths of diverse bacterial and archaeal species by mapping genetic differences accumulated over time.Phylogenetic trees are composed of tips,...
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...
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Development of an Individual-Tree Basal Area Increment Model using a Linear Mixed-Effects Approach
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Metrics on multilabeled trees: interrelationships and diameter bounds.

Katharina T Huber1, Andreas Spillner, Radosław Suchecki

  • 1School of Computing Sciences, University of East Anglia, Norwich, NR4 7TJ, UK. katharina.huber@cmp.uea.ac.uk

IEEE/ACM Transactions on Computational Biology and Bioinformatics
|December 1, 2010
PubMed
Summary

Researchers introduce new metrics for comparing multilabeled trees (MUL-trees), which generalize existing methods for phylogenetic trees. These metrics aid in understanding MUL-tree spaces and visualizing collections, with applications in biogeography and gene evolution.

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Area of Science:

  • Computational Biology
  • Evolutionary Biology
  • Data Science

Background:

  • Multilabeled trees (MUL-trees) are trees with leaves labeled from a finite set, allowing multiple leaves to share the same label.
  • MUL-trees are relevant in fields like biogeography, gene evolution, and phylogenetic network reconstruction.
  • Existing metrics for phylogenetic trees and tree shapes do not fully capture the complexity of MUL-trees.

Purpose of the Study:

  • To introduce novel metrics for comparing MUL-trees.
  • To generalize existing metrics from phylogenetic trees and tree shapes to the MUL-tree framework.
  • To provide tools for understanding the space of MUL-trees and visualizing collections.

Main Methods:

  • Development of new mathematical metrics specifically designed for MUL-trees.
  • Generalization of established metrics from related tree structures.
  • Analysis of relationships between the proposed MUL-tree metrics.
  • Derivation of novel diameter bounds for these metrics.

Main Results:

  • Introduction of a suite of novel metrics for MUL-tree comparison.
  • Demonstration that these metrics generalize well-known metrics on phylogenetic trees and tree shapes.
  • Identification of relationships between the new MUL-tree metrics and their diameter bounds.

Conclusions:

  • The novel MUL-tree metrics offer enhanced capabilities for analyzing and visualizing complex tree structures.
  • These metrics can be applied to understand the space of MUL-trees and their relationships.
  • The developed metrics provide a foundation for defining metrics on phylogenetic networks.