W2: Using NGS Analysis Tools

529 Boyer Hall 611 Charles E Young Dr E,, Los Angeles, CA, United States

High-throughput sequencing technology involves a number of concepts and techniques that shape a project before application-specific processes are utilized. First, this workshop introduces the more “universal” aspects of high-throughput sequence analysis—from experimental design to sequencing and alignment methods. Next, this workshop covers common file formats for sequence data and limitations of sequencing technologies. We will […]

W26: Protein Structure with AlphaFold

529 Boyer Hall 611 Charles E Young Dr E,, Los Angeles, CA, United States

The goal of the workshop is to enable the participants to submit and rationally evaluate results of the AlphaFold protein structure predictions. The class will cover the basic principles of the structural biology of proteins, protein structure visualization (in pymol) and protein structure prediction. The participants will have opportunity to generate AlphaFold predictions for a […]

W6: BS-DNA Methylation Analysis with Hoffman2 and R

529 Boyer Hall 611 Charles E Young Dr E,, Los Angeles, CA, United States

This workshop will introduce the basic principles of DNA methylation and briefly describe available methods for DNA methylation assessment, focusing on bisulfite sequencing (BS-Seq). We will cover the principles of BSseq preprocessing, alignment and methylation calling, differential methylation analysis, annotation and visualization. Attendees will have the opportunity to work on real DNA methylation data provided […]