#  Pseudobulk and related approaches for scRNA-seq analysis 

 



####  calendar\_today Date and Time 

 **October 21, 2025** 

 09:30AM - 12:00PM EDT 

####  pin\_drop Location 

 **LMA**  



 

 [ More details and how to register here arrow\_circle\_right ](https://hbctraining.github.io/main/registrations/AllFunders_Pseuobulk_related_approaches_scRNAseq_analysis) 

 



 

### \*\* Workshop dates and times:\*\*

**IN-PERSON (Longwood Medical Area):**

**Tuesday, October 21, 2025**: 9:30 AM - 12 PM

**Friday, October 24, 2025**: 9:30 AM - 12 PM

**Tuesday, October 28, 2025**: 9:30 AM - 12 PM

**Friday, October 31, 2025**: 9:30 AM - 12 PM

NOTE: Workshop dates are subject to change - please check back

*Instruction will be mostly learner-centric, requiring a time commitment between the workshop sessions!*

---

### **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 pseudbulk 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

---

### **Prerequisites:**

This is one of our advanced [workshops](https://hbctraining.github.io/main/), and **requires registrants to have attended the following Basic workshop** offered by our training team in the **last 6-8 months**:

- [Introduction to R](https://hbctraining.github.io/main/registrations/AllFunders_Intro-to-R)

There is an expectation of participants to have some/all of the following programming knowledge:

- Solid understanding of **data structures** and fluent implementation of **basic syntax** in R.
- Ability to use **functions** regularly and can modify arguments when necessary.
- Comfortable **installing packages and troubleshooting** issues.
- **Data wrangling** expertise (subsetting vectors and data frames) using base R or tidyverse
- Familiarity with ggplot2 for **data visualization**.
- Familiarity with RStudio interface

*Participants in this workshop would benefit from having some familiarity with single-cell RNA-seq analysis and the use of the* [*R Seurat package*](https://satijalab.org/seurat/)*, but it is not a requirement.*

**I am fluent in R but have not attended the HBC prerequisite workshop, can I still register?**

Yes, please register and provide your R/programming exerience on the form, and we’ll get back to you.



 

 



 

 

 Share on:- [     Facebook ](#)
- [     Twitter ](#)
- [     Linkedin ](#)
 


 Save: [ Add to calendar calendar\_today ](https://postdoc.hms.harvard.edu/node/1885966/event-feed.ics)  Copy link link