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BioBayes

Author(s): John Jungck1, Jennifer Galovich2, Joe Reistetter1

1. Beloit College 2. St. John's University and the College of St. Benedict

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Summary:
The BioBayes module leads the user through several different methodologies for applying Bayesian probabilities to real life examples and problems, such as HIV and cystic fibrosis screening.

Licensed under CC Attribution-NonCommercial-ShareAlike 4.0 International according to these terms

Version 1.0 - published on 14 Aug 2024 doi:10.25334/AR7F-6S30 - cite this

Keywords

  1. pedigrees
  2. bayesian statistics
  3. HIV
  4. Two-Way Tables
  5. punnett squares
  6. cystic fibrosis

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  1. Resource Type
  2. Subdiscipline
  3. Audience Level
  4. Software Used
Contents:
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Overview

The BioBayes module leads the user through several different methodologies for applying Bayesian probabilities to real life examples and problems. First, a 2-generation pedigree is examined using the classical, or “Platonist” approach of a Punnet square, and then the same pedigree is analyzed using Bayesian probabilities. Students are introduced to the fundamental equation underlying Bayesian probabilities and then asked to apply it to the pedigree. Second, the student uses 2-way tables to calculate various conditional probabilities associated with HIV screening. Finally, using decision trees the student will calculate the likelihood of having a child with cystic fibrosis if the status of the mother as a carrier is unknown.

Popular Text Citations

Carlin B P (2000) Bayes and Empirical Bayes Methods for Data Analysis, Second Edition. New York: Chapman and Hall.

Lee P M (2001) Bayesian Statistics: An Introduction. New York: Oxford University Press Inc.

Research Articles

JS Shoemaker JS, Painter IS, Weir BS 1999 Bayesian statistics in genetics. Trends in Genetics 15: 354-358.

Lange N, Carlin BP, Gelfand AE 1992 Hierarchical Bayes models for the progression of HIV infection using longitudinal CD4 T-cell numbers. Journal of the American Statistical Association 87: 615-626

Wade, P R 2000 Bayesian methods in conservation biology. Conservation Biology 14: 1308-1316.

Education Research & Pedagogical Materials

Stansfield WD, Carlton MA 2004 Bayesian statistics for biological data: pedigree analysis. The American Biology Teacher 66: 177-182

Tutorial & Background Materials

2-way tables

MrBayes

Citation

Researchers should cite this work as follows:

Fundamental Mathematical Concepts

Fundamental Mathematical Concepts
Bayes Theorem

Developed By

Developed by
Thomas Bayes

Primary Reference

Thomas Bayes. Essay towards solving a problem in the doctrine of chances. Philosophical Transactions of the Royal Society of London, 53:370--418, 1764. Reprinted in Biometrika, 45: 293-315, 1958