Introduction to RNA-Seq

Data Science Training Program

Krishna Choudhary, PhD

Gene expression is central to cell biology. Disease pathways often involve changes in the expression levels of at least some genes. RNA-seq has become one of the most popular experimental methods to quantify gene expression levels. This hands-on workshop will provide you with an introduction to a typical bulk RNA-seq protocol, and focus on the data analysis steps for recovering actionable insights.

You’ll learn how to take raw data in the typical format provided by sequencing centers, process it by trimming adapters, map trimmed reads to a reference genome, and tally gene-wise counts. You'll learn to analyze high-throughput data using a high-performance compute (HPC) cluster, learn about various methods of quality control at each step, and interpret data formats such as FASTQ, BAM, and GFF. No prior RNA-seq experience is required.

Important: Before the workshop, create an account on UCSF Wynton HPC cluster by requesting access.

Visit the workshop site for more details and materials.

Novice Level: This is an introductory workshop in the RNA-Seq Analysis series. No prior experience required. No prerequisites.