Bioinformatics workshop series: 7. Functional analysis using R
Bioinformatics workshop series: 7. Functional analysis using R In-Person
Session 7 – Functional analysis using R
Registration required* and In-Person
Presenter: Dr. Bony De Kumar, Yale Center for Genomic Analysis
Series Details: see below
Summary: Explore the power of R for functional analysis in RNAseq studies. This hands-on workshop guides participants through using R for insightful data interpretation, covering various techniques and tools for effective transcriptomic functional analysis.
You will learn how to:
- Learn to use Bioconductor packages such as clusterprofiler, Pathview,and SPIA for GO and KEGG pathway analysis
- Learn to construct Dot polts, Bra plots, Cnet Plots and Emma Plots from Payhway enrichment data
Requirements:
Bring a laptop with R and RStudio installed and running (download from here). You may also use your HPC account to access R/RStudio in Yale Open OnDemand.
This session is suitable for both beginner and intermediate users
- Date:
- Tuesday, March 19, 2024
- Time:
- 10:00am - 12:00pm
- Time Zone:
- Eastern Time - US & Canada (change)
- Location:
- SHM L E26/E27, Cushing/Whitney Medical Library, 333 Cedar St
- Campus:
- Medical School
- Categories:
- Bioinformatics
Bioinformatics workshop series: Intro to bulk RNA-seq data analysis: from experimental design to pathway analysis
GENERAL DESCRIPTION: This workshop series offers an introduction to bulk RNA-seq data analysis, guiding participants through each step, from library preparation to gene set enrichment analysis. The series is composed of 8 sessions (see table below). The sessions will be led by field experts from the Yale Centers for Genomic Analysis (YCGA), Computational Research (YCRC) and Cushing/Whitney Medical Library Bioinformatics Support Hub to better connect you with bioinformatics services available at Yale.
We have structured this series in such a manner as to provide practical skills in experimental design, data processing, and functional analysis. The series is ideal for those new to the field of transcriptomics or those wanting to start performing their own analysis.
Date: Every Tuesday from February 6 until March 26
Time: from 10am-12pm
Requirements: No previous command line experience required.
Seating Information: For registered participants, seating operates on a first-come, first-served basis. Please ensure timely arrival to secure your seat.
*Registrations for March sessions will open at the end of February.
|
DATE |
SESSION |
MODE |
PRESENTER |
|
2/06/24 |
Session 1 - Foundations of Bulk-RNAseq Library Preparation |
In-person |
Bony De Kumar, PhD |
|
2/13/24 |
Session 2 - Considerations for Designing Next-Generation Sequencing Experiments |
In-person |
Francesc Lopez Giraldez, PhD |
|
2/20/24 |
Session 3 - Introduction to the Yale Clusters and Open OnDemand |
In-person |
Robert Bjornson, PhD |
|
2/27/24 |
Session 4 - RNAseq Data Processing: A Step-by-Step Guide from raw sequences to counts |
In-person |
Francesc Lopez Giraldez, PhD |
|
3/05/24 |
Session 5 – Streamlining RNAseq Analysis with the YCGA Pipeline |
In-person |
Francesc Lopez Giraldez, PhD |
|
3/12/24 |
Session 6 – Analysis of differential gene expression of bulk RNA-seq data using “DESeq2” in RStudio. |
In-person |
Sofia Fertuzinhos, PhD |
|
3/19/24 |
Session 7 - Functional analysis using R |
In-person |
Bony De Kumar, PhD |
|
3/26/24 |
Session 8 - Functional analysis using Gene Set Enrichment Analysis (GSEA) |
In-person |
Rolando Milian, MLS |
