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Everything about Models of DNA evolution

Mathematical models of changing DNA

A number of different Markov models of DNA sequence evolution have been proposed. These substitution models differ in terms of the parameters used to describe the rates at which one nucleotide replaces another during evolution. These models are frequently used in molecular phylogenetic analyses. In particular, they are used during the calculation of likelihood of a tree and they are used to estimate the evolutionary distance between sequences from the observed differences between the sequences. Wikipedia →

🧭 Start here: a 6-step reading path

  1. Read the overview: Models of DNA evolutionA 5-minute orientation
  2. Skim a recent paper: The power of contemporary African DNA: Exploring models of human evolution and health in AfricaInfluential work since 2022
  3. Pick up a classic book: Molecular biology of the geneThe most-reprinted book on the subject
  4. Read the landmark paper: Species-aware DNA language models capture regulatory elements and their evolutionCited 65 times
  5. Go sideways: Substitution modelA closely related topic
  6. Go sideways: Theoretical motivation for general relativityA closely related topic

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🗂️ The subject at a glance

  1. Introduction
  2. DNA evolution as a continuous-time Markov chain
  3. Most common models of DNA evolution
  4. Two-state substitution models
  5. Lie Markov models

🏆 Landmark papers (most cited)

🆕 Influential since 2022

đź“š Books worth reading

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