Courses & Workshops

Short Courses & Workshops

LIBRARY BIOINFORMATICS WORKSHOPS

Data Science Initiative website

DNA Variant Analysis with R Bioconductor

In this 3-hour workshop, we will use R to analyze DNA variants from Variant Call Format files to identify those likely to have a functional impact. It is intended for those with intermediate R programming skills.

Offered biannually.

Course website and materials

Genomic Annotations with R Bioconductor

In this 3-hour workshop, we will use R for annotating genomic data with information from various reference genome and functional databases. It is intended for those with intermediate R programming skills.

Offered biannually.

Course website and materials

RNA-Seq Analysis with R Bioconductor

In this 3-hour workshop, we will use R to analyze bulk RNA-seq data to perform differential expression analysis, enrichment analysis, and visualizations. It is intended for those with intermediate R programming skills.

Offered biannually.

Course website and materials

Single-cell RNA-seq Analysis with Bioconductor

In this 3-hour workshop, we will demonstrate how to process and analyze single cell RNA-seq data using R Bioconductor packages, focusing primarily on seurat. It is intended for those with intermediate R programming skills who are familiar with the biological concepts of single cell RNA-seq.

Offered biannually.

Course website and materials

BAKAR INSTITUTE / GLADSTONE INSTITUTE WORKSHOPS

Bakar Computational Health Sciences Institute (BCHSI) website
See Education and Events for current listings

Workshop on Whole Genome & Exome analysis

This 3-hour workshop will be both theoretical and hands-on. We will learn the main tools used to do alignment, variant calling, annotation and visualization. We will start with raw FASTQ reads and get to annotated variants (VCF files).

GENOMIC & PRECISION MEDICINE ONLINE COURSE

This course aims to provide participants with some baseline knowledge of genomics, an overview of the clinical applications of genomic medicine, the skills to evaluate the clinical validity and utility of new tests, and an appreciation of the associated ethical and social issues inherent in this field.

Content presented by Robert Nussbaum, MD and Jeanette McCarthy, PhD.

Course Content — Genomic & Precision Medicine

Week 1: Human Genome Structure, Function and Variation
Video:  Part 1 | Part 2 | Part 3 | Part 4 | Part 5
Slides:  Download

Week 2: Mendelian Diagnostic Testing
Video:  Part 1 | Part 2 | Part 3 | Part 4 | Part 5
Slides:  Download Part A |  Download Part B | Download Supplement

Week 3: Next-gen Sequencing for Diagnostic Dilemmas
Video:  Part 1 | Part 2 | Part 3 | Part 4
Slides:  Download

Week 4: Methods for Dissecting the Genetic Basis of Complex Diseases
Video:  Part 1 | Part 2 | Part 3 | Part 4 | Part 5
Slides:  Download

Week 5: Predictive Testing for Common, Complex Diseases
Video:  Part 1 | Part 2 | Part 3 | Part 4
Slides:  Download

Week 6: Pharmacogenomics
Video:  Part 1 | Part 2 | Part 3 | Part 4
Slides:  Download

Week 7: Cancer Genomics
Video:  Part 1 | Part 2 | Part 3 | Part 4
Slides:  Download