1. Tutorial 12
Biological networks

2. Biological networks STRING: Protein-Protein interactions
BioGRID: Physical and genetic interactions
Cytoscape: Network visualization

3. STRING Protein-Protein interaction network

8. Protein-Protein association

9. Filtering network edges by evidence type

10. Increasing the network

11. Edges in a protein-protein network can represent different features

12. How can a network be represented in a text format

13. GO enrichment in STRING

14. BioGrid Physical and genetic interactions

15. What are genetic interactions?
More about the physical and genetic evidence in BioGRID:

20. Cytoscape Network visualization

22. Nodes
Weights of edges

23. Source node
Target node
Edge Weights
You can change column meaning

24. Network visualization
Nodes and edges info

25. Change network visualization

27. Edges weights now represent the experimental evidence score

29. Attributes can be added for nodes as well

30. The layout can depend on the node attributes

31. A short reminder Degree: the number of edges that a node has.
The node with the highest degree in the graph

32. A short reminder
Closeness: measure how close is a node to all other nodes in the network.
The nodes with the highest closeness

33. A short reminder
Betweenness: quantify the number of shortest paths that pass through a node.
The node with the highest betweenness

34. Analyzing the network in Cytoscape

36. Visualizing node features on the netwrok

37. Features per node/edge are also available as a table

38. Features per node/edge are also available as a table

39. Hope you enjoyed the course!!
Thank you!
Hope you enjoyed the course!!