Gene set analysis - GSEA and Fisher's exact test

See all my videos at:
www.tilestats.com
In this video, we will learn about gene set analysis:
1. Gene ontology and KEGG
2. Overrepresented genes - an example (02:00)
3. Fisher's exact test (04:00)
4. Adjust the p-values by BH (07:20)
5. Gene set enrichment analysis (GSEA) (08:53)
6. An example of an online tool (11:28)

[@pancake9191]

best video I've watched on this topic

[@amrsalaheldinabdallahhammo663]

Very helpful, thanks a lot, I wish to see more videos about GSEA and Gene ontology :)

[@footballchannel8430]

this video is a masterpiece

[@Mkvine]

Wow this has been so helpful. Thank you so much!

[@esan120au]

Excellent job! Thank you

[@ryanpotter128]

Super helpful!

[@esan120au]

08:53 GSEA

[@yvesaubry7556]

Thank you for your video.
I tried to compute the p-value from Fisher's exact test with the table shown at 5'40, and get 0.306.
Could you explain how you get 0.93 ?

[@tilestats]

Which software did you use?

[@sajedehfadaei9542]

me too. us used Fisher exact test in Scipy package

[@tilestats]

@@sajedehfadaei9542 With this code, I get 0.93:
import numpy as np
import scipy.stats as stats
table = np.array([[1, 3], [8, 8]])
stats.fisher_exact(table, alternative='greater')
What code did you use to get 0.306?

[@tilestats]

@sajedehfadaei9542 see above or below