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 @ [ Ссылка ]
#Programming #Assignments and #Answers @ [ Ссылка ]
#Playlist: [ Ссылка ]
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): [ Ссылка ]
ArrayExpress: [ Ссылка ]
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