Lecture

Mutual Information: Continued

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In course

BIO-369: Randomness and information in biological data

Biology is becoming more and more a data science, as illustrated by the explosion of available genome sequences. This course aims to show how we can make sense of such data and harness it in order to understand biological processes in a quantitative way. ...

Description

This lecture delves into the concept of mutual information, focusing on quantifying statistical dependence between variables. It covers the definition of mutual information, its properties, and its role in identifying coevolving sites in interacting proteins. The lecture also explores inferring probability distributions from data, including model selection, parameter estimation, and predicting protein structure from sequence data.

Instructor

Anne-Florence Raphaëlle Bitbol

I was trained in physics, and always had a strong interest in biology. I am broadly interested in understanding biological phenomena in a quantitative way, through physical concepts and mathematical and computational tools. I investigate the relative impacts of optimization and historical contingency in biological evolution, both at the scale of protein sequences and at the scale of microbial populations.Here is my research group website.Curriculum vitae Here is my complete CV. Professional experience:Since

Official source

Ontological neighbourhood

Statistics

Statistical inference: Mathematical statistics

Information engineering

Information theory: Channel capacity

Related concepts (32)

Maximum likelihood estimation

In statistics, maximum likelihood estimation (MLE) is a method of estimating the parameters of an assumed probability distribution, given some observed data. This is achieved by maximizing a likelihood function so that, under the assumed statistical model, the observed data is most probable. The point in the parameter space that maximizes the likelihood function is called the maximum likelihood estimate. The logic of maximum likelihood is both intuitive and flexible, and as such the method has become a dominant means of statistical inference.

Information theory

Information theory is the mathematical study of the quantification, storage, and communication of information. The field was originally established by the works of Harry Nyquist and Ralph Hartley, in the 1920s, and Claude Shannon in the 1940s. The field, in applied mathematics, is at the intersection of probability theory, statistics, computer science, statistical mechanics, information engineering, and electrical engineering. A key measure in information theory is entropy.

Probability distribution

In probability theory and statistics, a probability distribution is the mathematical function that gives the probabilities of occurrence of different possible outcomes for an experiment. It is a mathematical description of a random phenomenon in terms of its sample space and the probabilities of events (subsets of the sample space). For instance, if X is used to denote the outcome of a coin toss ("the experiment"), then the probability distribution of X would take the value 0.5 (1 in 2 or 1/2) for X = heads, and 0.

Joint probability distribution

Given two random variables that are defined on the same probability space, the joint probability distribution is the corresponding probability distribution on all possible pairs of outputs. The joint distribution can just as well be considered for any given number of random variables. The joint distribution encodes the marginal distributions, i.e. the distributions of each of the individual random variables. It also encodes the conditional probability distributions, which deal with how the outputs of one random variable are distributed when given information on the outputs of the other random variable(s).

Definition

A definition is a statement of the meaning of a term (a word, phrase, or other set of symbols). Definitions can be classified into two large categories: intensional definitions (which try to give the sense of a term), and extensional definitions (which try to list the objects that a term describes). Another important category of definitions is the class of ostensive definitions, which convey the meaning of a term by pointing out examples. A term may have many different senses and multiple meanings, and thus require multiple definitions.

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Dependence and Correlation

Explores dependence, correlation, and conditional expectations in probability and statistics, highlighting their significance and limitations.

Quantifying Statistical Dependence

Delves into quantifying statistical dependence through covariance, correlation, and mutual information.

Describing Data: Statistics and Hypothesis Testing

Covers descriptive statistics, hypothesis testing, and correlation analysis with various probability distributions and robust statistics.

Mutual Information in Biological Data

Explores mutual information in biological data, emphasizing its role in quantifying statistical dependence and analyzing protein sequences.

Entropy and Mutual Information