Building co-expression network from gene expression data | Intro

Welcome to a sneak peek of the beautiful world of Systems Biology, where we are going to use gene co-expression patterns and build a model representation (a network) of how the genes likely interact within the cells.

Instructions and expected output in html format:
https://rpubs.com/malina_19/1181153

Github repository:
https://github.com/malina-dva/Buildin...

Link to YouTube videos with excellent lectures on graph theory:
   • Network Structure  

Little edits

0:00 Intro
03:15 Molecules and genes can be entities of networks and all network properties would apply to both types equally, but TFs can't be enriched within molecules, only amongst genes :D
05:36 The two main types of entities that comprise a network are: nodes and edges (its that simple) :)
12:33 This is gene expression dataframe or matrix (not network) :D
12:54 It's perfectly fine if the patterns are also shared between two samples only, as long as that passes the stat. tests

Disclaimer: "The views and opinions expressed in these tutorials are my own and do not reflect the views and opinions of my previous or current employers. Additionally, the tutorials are not a part of project workflows I have conducted with my previous or current employers."


#R #Rstudio #Cytoscape #Network #coexpression #coexpressionnetwork
#co-expression #graphml #graph #igraph #geneco-expression #geneinteractions