CH 248 (JAN) 3:0
Molecular Systems Biology
Various topics highlighting experimental techniques and modeling approaches in systems biology for problems ranging from molecular level to the multi-cellular level will be covered.
Topics: Properties of biomolecules, Biomolecular Forces, Single molecule experimental techniques, Molecular motors, Molecular heterogeneity, Self-organization, Enzyme kinetics, Modeling cellular reactions and processes, Fluctuations and noise in biology, Cellular variability, Biological networks, Modeling dynamics of bioprocesses and cellular signaling.
Instructor: Rahul Roy
Link for the course: CH 248 Molecular Systems Biology
The course is intended for Masters and Research students. Undergraduates with sufficient background may approach the instructor regarding crediting the course. No prior knowledge of biology is needed but a non-biologist will have to self-educate. Basic grasp of calculus, linear algebra and programming skills in C or Matlab / Mathematica is recommended.
Philip Nelson, Biological Physics: Energy, Information, Life, W. H. Freeman, 2007, ISBN-13: 978-0716798972.
Edda Klipp, Wolfram Liebermeister, Christoph Wierling, Axel Kowald, Hans Lehrach, Ralf Herwig, Systems Biology, Wiley-Vch, 2009, ISBN: 978-3527318742.
Uri Alon, An Introduction to Systems Biology: Design Principles of Biological Circuits, Chapman & Hall/CRC Mathematical & Computational Biology, 2006, ISBN: 978-1584886426.
MB 207 (AUG) 2:0
DNA-Protein interaction, Regulation of gene expression, Nanobiology
Basic concepts on structural basis for macromolecular recognition. Concept of charge in macromolecules, specific and non-specific recognition, symmetry in DNA-protein recognition, structural ensembles, co-operativity, specific examples, story of lambda, restriction enzyme recognition, t-RNA synthetase recognition, promoter-RNA polymerase interaction, inducers and repressors, action at a distance. Single molecule paradigm. Methods to follow nanobiology. DNA-protein recognition at the level of single molecules.
Instructor: Dipankar Chatterji / Rahul Roy
CH 205 (JAN) 3:0
Chemical Reaction Engineering
Overview, review of background material. Differential and integral balances for homogeneous reactive systems. Ideal reactors: batch/CSTR/PFR. Uniqueness and multiplicity of steady states, heterogeneous reactions and reactors, non-ideal reactors.
Instructors: K Kesava Rao / Rahul Roy
Aris R., Elementary Chemical Reactor Analysis, Prentice-Hall 1969.
Schmidt, L.D., The Engineering of Chemical Reaction, Oxford, 1998.
Froment G.F., Bischoff K.B., and Wilde, J.D., Chemical Reactor Analysis and Design, Wiley, 2011.
CH 249 (JAN) 3:0
Structural and Functional DNA Nanotechnology
Origin of structural DNA nanotechnology; properties of DNA and other nucleic acids relevant to nanotechnology; design of branched DNA systems; DNA nanomechanical devices; DNA origami and DNA bricks; Forces and energetics in nanoscale; Thermodynamics of self-assembly formation; Experimental techniques to characterize DNA nanostructures including AFM, SEM, TEM; single molecule and fluorescence methods; gel electrophoresis; sequencing and radio-labelling assays; Application of DNA nanostructures in molecular computing; organizing and templating other nanomaterials; bio-sensing; nano-fabrication; cargo delivery; hybrid DNA nanomaterials.
Instructor: Banani Chakraborty/ Rahul Roy
DNA Nanotechnology: From structure to function /Fan, Chunhai /Springer
Structural DNA nanotechnology / Seeman, Nadrian / Cambridge Uni. Press
Articles / lecture notes provided by the instructor