Gene Ontology and mRNA visualization (Bioinformatics S12E2)

Gene expression lecture continued, multiple testing, pathways, clustering and #free #microarray #data NCBI and EMBL-EBI (links below). This is a live-stream recording of the MSc and PhD lecture series: #Bioinformatics for plant and animal sciences, given digitally during the Covid19 pandemic at the Humboldt University in Berlin organized and lectured by Dr Danny Arends. #Lectures @ https://dannyarends.nl/bioinformatik/ #Programming #Assignments and #Answers @ https://dannyarends.nl/bioinfo/ #Playlist: https://www.youtube.com/playlist?list=PLhR2Go-lh6X5A5WbiO3SPHuoWbwpNznUl Chapters: 00:00 Welcome back 00:14 Multiple testing: Type1 and Type2 errors using p.adjust 03:31 Pathway analysis: Gene Ontology versus KEGG / REACTOME 04:56 Gene Ontology: 3 Definitions root a structured vocabulary 07:48 Gene Ontology: Over and Under representation testing 09:12 Visualizations of Gene Clusters and Pathways is essential 10:51 Heat maps between individuals or genes in R 14:40 Dendrogram, Phylogenetic Trees, distance measures in detail 18:21 An example on how to compute Manhattan and Euclidean Distance 19:01 Clustering profiles - Hierarchical Clustering in detail 21:44 Cluster versus Gene Profile - Linkage (Single, Complete, Average) 31:51 Visualizations: MA plot and Volcano plot 37:23 Microarray data, download and use 100+ Mio USD$ for free @ NCBI and EMBL-EBI 43:38 Lecture summary and Thanks for Watching ! Gene Expression Omnibus (GEO): https://www.ncbi.nlm.nih.gov/geo/ ArrayExpress: https://www.ebi.ac.uk/arrayexpress/ Thanks for taking an interest in my channel 😄If you've made it this far down, support me by giving a like or subscribing. Join me during my live streams Thursday afternoons on Twitch @ https://www.twitch.tv/dannyarends This work is licensed under version 3.0 of the Creative Commons CC-BY license. For more information see http://creativecommons.org/licenses/by/3.0/legalcode