HBC’s Pseudobulk and related approaches for scRNA-seq analysis workshop

Announcement for HBC’s Pseudobulk and related approaches for scRNA-seq analysis workshop

Click here to register and learn more.

Dates and Times:

Tuesday, October 21^st: 10 AM - 12 PM
Friday, October 24^th: 10 AM - 12 PM
Tuesday, October 28^th: 10 AM - 12 PM
Friday, October 31^st: 10 AM - 12 PM

Where: Online (Zoom)

Workshop description: 

After clustering cells as part of a single-cell RNA-seq experiment, investigators are often interested in carrying out a differential expression analysis between conditions within certain cell types. When the experimental design includes replicates with multi-conditions there is power in identifying differentially expressed genes using a pseudobulk approach. In this hands-on workshop, we will:

• Discuss various approaches for differential expression using single cell RNA-seq data
• Prepare single-cell RNA-seq raw count data for pseudobulk analysis
• Perform differential expression analysis on pseudobulk counts using DESeq2
• Present approaches for evaluating differential proportions of cells between conditions

During this hands-on workshop, participants will learn:

• How to organize scRNA-seq data for analysis
• How to use DESeq2 to obtain a list of differentially expressed genes
• How to visualize expression patterns of differentially expressed genes in single cell RNA-seq data   

Course requirements:

• This workshop requires registrants to have attended our Introduction to R workshop (or have a working knowledge of R). 
• Mandatory attendance for all four classes
• 3-5 hours of reading and exercises from selected lessons before each workshop session
• Active participation during discussion sessions

Instruction will be mostly learner-centric. Online classes will be focused on exercises and discussion. Please make sure you take this into account when you sign up for the workshop!

Cost: 

Priority is given to Harvard Quad and HCC researchers, who are subsidized for this workshop at a price of $65. Others interested in workshops can find prices here and should register using the link below.

Registration link and more details about the workshop:https://tinyurl.com/HBC-Pseudobulk-for-scRNAseq

Contact hbctraining@hsph.harvard.edu with any questions.