Gene Set Enrichment Analysis (GSEA) – simply explained!
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Published 2022-12-06
We will go through the main concepts of GSEA to get a feeling of how it works and the differences with Over-Representation Analysis methods (ORA).
Hope you like it!
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If you liked this video or found it useful, please let me know! Your comments and feedback are very much appreciated😊
If you have questions, don't hesitate to leave me a comment down below, I will answer as soon as I can:)
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Other interesting resources for GSEA:
Main GSEA webpage: www.gsea-msigdb.org/gsea/index.jsp
More on the method itself: www.pnas.org/doi/10.1073/pnas.0506580102
Paper comparing pathway enrichment analysis methods: genomebiology.biomedcentral.com/articles/10.1186/s…
All Comments (21)
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Hi Biostatsquid. This is the most straight forward explanation on GSEA i've heard. Thank you for your hard work.
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Thank you so much! Perfect for beginners to quickly grasp it!
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Thank so much for both videos, such clear and concise explanation, please continue making videos.🙃
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So glad I discovered this channel! Looking forward to all these videos.
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I thoroughly enjoy the illustrations. Thank you! :D
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such an awesome video. informative and clear to follow. thank you so much
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Amazing, I will definitely recommend to my colleagues - thanks for such a nice work
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wow this is such a clear description!
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Simply genius :) ... Keep on making videos and entertain us
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Truly amazing videos!
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That was super helpful, thank you so much!
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thank you very much for the explanation😃
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love this channel
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So helpful. Thanks a lot.
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AMAZING!!!
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Thank you for explaining it well.. Can you pls provide information on the inputs needed to perform ssGSEA ...
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YOU UNDERSTANDED ME THANK YOU
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Eres la mejor!! Saludos desde Colombia :)
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Great material! Do you know of any topology-based methods that works on single-cell datasets (or pseudo-bulk single cell data)?
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Great video! Really helpful for getting an understanding of the analysis workflow! A small critique / suggestion for improvement that I think could be made is in terminology being used, specifically referring to genes in the ranked list as being overrepresented. As you said in the video, one is not filtering any genes, so when looking at your gene set in GSEA, you aren't looking at the proportion of the genes being part of your list, but rather where are the genes located in the unfiltered ranked list containing all the genes.
