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Physics of Biological Systems

Physics of Biological Systems. Instructor: Prof. Mithun Mitra, Department of Physics, IIT Bombay. The application of physical principles to biological systems is an exciting and rapidly evolving field of research. Methods of equilibrium and non-equilibrium statistical physics, stochastic processes, nonlinear dynamics and polymer physics, among others have helped understand the guiding principles of a variety of biological processes. In this course, we will attempt to provide an introduction to the physics of biological systems using theoretical tools, with examples from diverse areas of biology such as pattern formation, low Reynolds number flows, cytoskeleton and motors and transport in cells, gene expression and chromatin organisation, among others. (from nptel.ac.in)

Lecture 01 - Introduction


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Lecture 01 - Introduction
Lecture 02 - DNA Packing and Structure
Lecture 03 - Shape and Function
Lecture 04 - Numbers and Sizes
Lecture 05 - Spatial Scales and System Variation
Lecture 06 - Timescales in Biology
Lecture 07 - Random Walks and Passive Diffusion
Lecture 08 - Random Walks to Model Biology
Lecture 09 - Derivation of FRAP Equations
Lecture 10 - Drift-Diffusion Equations
Lecture 11 - Solutions of the Drift-Diffusion Equations
Lecture 12 - The Cell Signaling Problem
Lecture 13 - Cell Signaling and Capture Probability of Absorbing Sphere
Lecture 14 - Capture Probability of Reflecting Sphere
Lecture 15 - Mean Capture Time
Lecture 16 - Introduction to Fluids, Viscosity and Reynolds Number
Lecture 17 - Introduction to the Navier-Stokes Equation
Lecture 18 - Understanding Reynolds Number
Lecture 19 - Life at Low Reynolds Number
Lecture 20 - Various Phenomena at Low Reynolds Number
Lecture 21 - Bacterial Flagellar Motion
Lecture 22 - Rotating Flagellum
Lecture 23 - Energy and Equilibrium
Lecture 24 - Binding Problems
Lecture 25 - Transcription and Translation
Lecture 26 - Internal States of Macromolecules
Lecture 27 - Protein Modification Problem
Lecture 28 - Haemoglobin-Oxygen Binding Problem
Lecture 29 - Freely Jointed Polymer Model
Lecture 30 - Entropic Strings and Persistence Length
Lecture 31 - Freely Rotating Chain Model and Radius of Gyration
Lecture 32 - The Hierarchical Chromatin Packing Model
Lecture 33 - FISH and DNA Looping
Lecture 34 - Nucleosomes as Barriers, Hi-C, and Contact Probabilities
Lecture 35 - Deriving the Full Force Extension Curve
Lecture 36 - Random Walk Models for Proteins
Lecture 37 - Hydrophobic Polar Protein Model
Lecture 38 - Diffusion in Crowded Environments
Lecture 39 - Depletion Interactions
Lecture 40 - Examples and Implications of Depletion Interactions
Lecture 41 - Introduction to Biological Dynamics
Lecture 42 - Introduction to Rate Equations
Lecture 43 - Separation of Timescales in Enzyme Kinetics
Lecture 44 - Structure and Treadmilling of Actin and Microtubules
Lecture 45 - Average Length of Polymers in Equilibrium
Lecture 46 - Growth Rate of Polymers
Lecture 47 - Dynamic Treadmilling in Microtubules
Lecture 48 - Introduction to Molecular Motors
Lecture 49 - Force Generation by Molecular Motors
Lecture 50 - Models of Motor Motion
Lecture 51 - Molecular Motors
Lecture 52 - Free Energies of Motor for Stepping
Lecture 53 - Two State Models
Lecture 54 - Cooperative Transport of Cargo
Lecture 55 - Cytoskeleton as a Motor
Lecture 56 - Translocation Ratchet
Lecture 57 - Spatial Pattern in Biology
Lecture 58 - Some Common Spatial Patterns in Biology
Lecture 59 - Reaction Diffusion and Spatial Pattern
Lecture 60 - Pattern Formation in Reaction Diffusion System with Stability
Lecture 61 - Condition for Destabilization in Pattern Formation
Lecture 62 - Schnakenberg Kinetics