Functional Genomics (378-0-1)

Instructors

Eric Weiss
847/491-7034
HOGAN 2205 Tech Drive, Suite 2100

Meeting Info

Technological Institute L251: Mon, Wed, Fri 9:00AM - 9:50AM

Overview of class

On June 26, 2000, scientific and political leaders announced the first draft of the human genome sequence. It marked a new era in biomedical science, in which generation and analysis of genome-scale data have yielded major advances in medicine and new understanding of fundamental biological phenomena. This course surveys major topics in contemporary genomics, emphasizing work that reveals mechanistic information about biological function. We begin with genome sequencing and assembly, analysis of key genome features, and large-scale identification of genes and regulatory elements. Students will learn the statistical basis of sequence alignment and information theory concepts, such as Shannon entropy, that underpin analysis of genomic data. We then turn to genome-scale analysis of mRNA, where students will learn clustering approaches that reveal informative gene expression patterns in cells and tissues. Finally, we cover approaches that use large-scale genetic analysis, such as synthetic genetic arrays and CRISPR screens, to define gene function and map interaction networks.

Computation sits at the center of the course, and students will learn to analyze large datasets with DESeq2 and other widely used packages. Familiarity with Python or R helps but is not required. Students will use AI coding agents to build data analysis workflows, while also learning to check, interpret, and defend the results those tools produce rather than outsourcing critical thinking. In addition to individual assignments and in-class exams, students will work in small teams on structured, well-defined projects.

Registration Requirements

Prerequisites: Students must have completed BIOL_SCI 202-0 and BIOL_SCI 203-0 to register for this course.

Teaching Method

Lecture, discussion, small group work on assigned projects.

Evaluation Method

Exams Papers Projects

Class Materials (Required)

Primary scientific literature and instructor authored material will be distributed in class.

Class Materials (Suggested)

Introduction to Genomics, third edition, Arthur Lesk. Oxford University Press; 3rd edition (May 23, 2017) ISBN-13: 978-0198754831

Class Attributes

SoC Mathematics, Science, and Technology Distro

Enrollment Requirements

Enrollment Requirements: Prerequisites: Students must have completed BIOL_SCI 202-0 or BIOL_SCI 240-0, and BIOL_SCI 203-0 or BIOL_SCI 241-0 to register for this course.