Chapter 3

Lecture Videos #

A Massive Open Online Course on Computational Systems Biology, which is in part, a basis for this book, is also available, through the Indian educational platforms, NPTEL (National Programme on Technology Enhanced Learning) and SWAYAM.

The lectures (including hands-on lab sessions), totalling over 30 hours of content, are also available on YouTube.

Chapter 3: Structure of networks #

Introduction to Network Biology (25:52)

  • Centrality Measures
  • Closeness Centrality
  • Betweenness Centrality

Introduction to Network Biology (10:31)

  • Connected Components
  • Network Motifs (Quick Intro)

Network Biology (13:11)

  • Network Concepts Review

Network Models (8:10)

  • Random (\ER) Networks

Network Models (27:58)

  • Small-World (Watts–Strogatz) Networks
  • Power law Networks

Biological Networks (15:15)

  • Centrality–lethality hypothesis
  • Assortativity

Network Perturbations (14:50)

  • Perturbations

Community Detection (21:42)

  • Communities in Networks
  • Modularity

Network Motifs (21:53)

  • What are Motifs?
  • Randomising a Network
  • Biological significance

Lab: Cytoscape (23:41)

  • Cytoscape Introduction
  • STRING Database
  • Loading and Visualising Networks
  • NetworkAnalyzer

Lab: Cytoscape (19:30)

  • Simple Network Walkthrough
  • Other Tools

Lab: Network Biology (23:54)

  • MATLAB Boost Graph Library (BGL)
  • Regular lattice
  • Rewiring a regular lattice

Network Biology: Recap (37:27)

  • Network Parameters
  • Network Models
  • Communities
  • Motifs

Lab: Network Models & Perturbations (7:16)

  • Network Models

Lab: Network Models & Perturbations (46:21)

  • Network Perturbations
  • Profiling (MATLAB)