Statistics and Algorithms in Genomic Biology

Date | Topic | Slides | Matlab code | Homework/Exams |

8/22 | Why probability and statistics in Genomics? | Lecture 0 | ||

8/29 | Probability spaces, events, Venn diagrams. Definitions of probability: statistical. |
Lecture 1 | coin_toss.m | |

8/31 | Matlab primer. Definitions of probability: inductive. Combinatorics | Lecture 2 | ||

9/5 | Axioms of probability. Conditional probability | Lecture 3 | ||

9/7 | Circuits. Bayes theorem | Lecture 4 | hw1.pdf | |

9/12 | Monty Hall Problem. Discrete Random Variables. Mean, Variance, etc. | Lecture 5 | ||

9/14 | Useful discrete distributions: Uniform, Bernoulli, Binomial, | Lecture 6 | hw1_with_answers.pdf | |

9/19 | Useful discrete distributions: Poisson. | Lecture 7 | ||

9/21 | Poisson distribution: Application to genome assembly | Lecture 8 | hw2.pdf | |

9/26 | Useful discrete distributions: Geometric and Negative Binomial Distributions with Examples in Genomics |
Lecture 9 | ||

9/28 | Continuous Probability Distributions, Example: Unifiorm | Lecture 10 | ||

10/5 | Poisson Process; Exponential, Erlang, Gamma, Distributions | Lecture 11 | ||

10/10 | Gaussian, Log-normal, Binding energy of protein-protein interactions | Lecture 12 | central_limit_theorem.m; PINT_binding_energy.m; PINT_binding_energy.mat |
hw2_with_answers.pdf |

10/12 | Joint Probability Distributions, Marginal Probabilities, Conditional Probabilities, Independence, Covariance, Correlations | Lecture 13 | correlation.m | hw3.pdf |

10/17 | Sample statstics. Histograms, Box-and-whiskers plot. | Lecture 14 | hw3_with_answers.pdf | |

10/19 | Sample Mean and Variance | Lecture 15 | ||

10/24 | Confidence Intervals | Lecture 16 | hw4.pdf | |

10/26 | Hypothesis testing | Lecture 17 | ||

10/31 | Goodness of fit test | Lecture 18 | m_and_m_analysis_template.m | |

11/2 | Linear regression. Correlated gene expression. | Lecture 19 | hw4_with_answers.pdf | |

11/7 | Lecture solving problems in preparation for midterm | Lecture 20 | ||

11/9 | Midterm | Midterm problems with answers | ||