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X-WR-CALNAME;VALUE=TEXT:Pseudobulk and related approaches for scRNA-seq analysis
PRODID:-//Harvard events data//EN
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SUMMARY:Pseudobulk and related approaches for scRNA-seq analysis
DESCRIPTION:<h3 id="-workshop-dates-and-times">** Workshop dates and times:**</h3><p><strong>IN-PERSON (Longwood Medical Area):</strong></p><p><strong>Tuesday, October 21, 2025</strong>: 9:30 AM - 12 PM</p><p><strong>Friday, October 24, 2025</strong>: 9:30 AM - 12 PM</p><p><strong>Tuesday, October 28, 2025</strong>: 9:30 AM - 12 PM</p><p><strong>Friday, October 31, 2025</strong>: 9:30 AM - 12 PM</p><p>NOTE: Workshop dates are subject to change - please check back</p><p><em>Instruction will be mostly learner-centric, requiring a time commitment between the workshop sessions!</em></p><hr><h3 id="description"><strong>Description:</strong></h3><p>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:</p><ul><li>Discuss various approaches for differential expression using single cell RNA-seq data</li><li>Prepare single-cell RNA-seq raw count data for pseudobulk analysis</li><li>Perform differential expression analysis on pseudobulk counts using DESeq2</li><li>Present approaches for evaluating differential proportions of cells between conditions</li></ul><hr><h3 id="prerequisites"><strong>Prerequisites:</strong></h3><p>This is one of our advanced <a href="https://hbctraining.github.io/main/">workshops</a>, and <strong>requires registrants to have attended the following Basic workshop</strong> offered by our training team in the <strong>last 6-8 months</strong>:</p><ul><li><a href="https://hbctraining.github.io/main/registrations/AllFunders_Intro-to-R">Introduction to R</a></li></ul><p>There is an expectation of participants to have some/all of the following programming knowledge:</p><ul><li>Solid understanding of <strong>data structures</strong> and fluent implementation of <strong>basic syntax</strong> in R.</li><li>Ability to use <strong>functions</strong> regularly and can modify arguments when necessary.</li><li>Comfortable <strong>installing packages and troubleshooting</strong> issues.</li><li><strong>Data wrangling</strong> expertise (subsetting vectors and data frames) using base R or tidyverse</li><li>Familiarity with ggplot2 for <strong>data visualization</strong>.</li><li>Familiarity with RStudio interface</li></ul><p><em>Participants in this workshop would benefit from having some familiarity with single-cell RNA-seq analysis and the use of the </em><a href="https://satijalab.org/seurat/"><em>R Seurat package</em></a><em>, but it is not a requirement.</em></p><p><strong>I am fluent in R but have not attended the HBC prerequisite workshop, can I still register?</strong></p><p>Yes, please register and provide your R/programming exerience on the form, and we’ll get back to you.</p>
LOCATION:LMA
STATUS:CONFIRMED
DTSTART:20251021T133000Z
DTEND:20251021T160000Z
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