Lecture

Genome-wide Association Studies: Statistical Analysis

Graph Chat

Chat with Graph Search

Ask any question about EPFL courses, lectures, exercises, research, news, etc. or try the example questions below.

DISCLAIMER: The Graph Chatbot is not programmed to provide explicit or categorical answers to your questions. Rather, it transforms your questions into API requests that are distributed across the various IT services officially administered by EPFL. Its purpose is solely to collect and recommend relevant references to content that you can explore to help you answer your questions.

Description

This lecture covers the statistical analysis of Genome-wide Association Studies (GWAS). It explains how SNPs are tested for association with protein expression using p-values and statistical tests. The lecture also discusses the importance of adjusting for multiple testing to avoid false positives and the concept of sparse effects in genetic studies.

Official source

Ontological neighbourhood

Statistics

Statistical inference: Statistical hypothesis testing

Related concepts (32)

Statistical hypothesis testing

A statistical hypothesis test is a method of statistical inference used to decide whether the data at hand sufficiently support a particular hypothesis. Hypothesis testing allows us to make probabilistic statements about population parameters. While hypothesis testing was popularized early in the 20th century, early forms were used in the 1700s. The first use is credited to John Arbuthnot (1710), followed by Pierre-Simon Laplace (1770s), in analyzing the human sex ratio at birth; see .

Statistical inference

Statistical inference is the process of using data analysis to infer properties of an underlying distribution of probability. Inferential statistical analysis infers properties of a population, for example by testing hypotheses and deriving estimates. It is assumed that the observed data set is sampled from a larger population. Inferential statistics can be contrasted with descriptive statistics. Descriptive statistics is solely concerned with properties of the observed data, and it does not rest on the assumption that the data come from a larger population.

Statistics

Statistics (from German: Statistik, () "description of a state, a country") is the discipline that concerns the collection, organization, analysis, interpretation, and presentation of data. In applying statistics to a scientific, industrial, or social problem, it is conventional to begin with a statistical population or a statistical model to be studied. Populations can be diverse groups of people or objects such as "all people living in a country" or "every atom composing a crystal".

Test statistic

A test statistic is a statistic (a quantity derived from the sample) used in statistical hypothesis testing. A hypothesis test is typically specified in terms of a test statistic, considered as a numerical summary of a data-set that reduces the data to one value that can be used to perform the hypothesis test. In general, a test statistic is selected or defined in such a way as to quantify, within observed data, behaviours that would distinguish the null from the alternative hypothesis, where such an alternative is prescribed, or that would characterize the null hypothesis if there is no explicitly stated alternative hypothesis.

Statistical significance

In statistical hypothesis testing, a result has statistical significance when a result at least as "extreme" would be very infrequent if the null hypothesis were true. More precisely, a study's defined significance level, denoted by , is the probability of the study rejecting the null hypothesis, given that the null hypothesis is true; and the p-value of a result, , is the probability of obtaining a result at least as extreme, given that the null hypothesis is true. The result is statistically significant, by the standards of the study, when .

Related lectures (64)

Hypothesis Testing: Statistics Overview

Provides an overview of hypothesis testing, p-values, Wald test, and non-parametric statistics.

Hypothesis Testing: State of Nature

Explores hypothesis testing, emphasizing the state of nature and the importance of choosing the most powerful test.

Understanding Statistics & Experimental Design

Explores t-tests, confidence intervals, ANOVA, and hypothesis testing in statistics, emphasizing the importance of avoiding false discoveries and understanding the logic behind statistical tests.

Hypothesis Testing in Statistics

Delves into hypothesis testing, covering test statistics, critical regions, power functions, p-values, multiple testing, and non-parametric statistics.

Multiple Testing Problem

Explores the challenges of multiple testing in genomic data analysis, covering error rate control, adjusted p-values, permutation tests, and pitfalls in hypothesis testing.

Related concepts (32)

Statistical hypothesis testing

Statistical inference

Statistics

Test statistic

Statistical significance