{"id":23831,"date":"2022-11-01T11:59:34","date_gmt":"2022-11-01T11:59:34","guid":{"rendered":"https:\/\/www.bio.iitb.ac.in\/~ashutoshk\/?page_id=23831"},"modified":"2024-01-02T05:16:08","modified_gmt":"2024-01-02T05:16:08","slug":"department-courses","status":"publish","type":"page","link":"https:\/\/www.bio.iitb.ac.in\/~ashutoshk\/department-courses\/","title":{"rendered":"Department courses"},"content":{"rendered":"\t\t
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BB525\u00a0 Biological Thermodynamics and Kinetics\u00a0\u00a0\u00a0<\/b><\/h2>

Varsha Semester : <\/strong>July to November<\/p>

Credit structure: <\/b>2 (L), 1 (T), 0 (P), 3 (C)) Half-semester<\/p>\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t

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BB525 Biological Thermodynamics and Kinetics \n<\/h1>\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t
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Thermodynamic functions \u2013 U, A, H, S and G. The First law: work, heat, energy, heat transactions, enthalpy, standard enthalpy changes. The Second law: entropy, entropy changes accompanying specific processes. The Third law and Biology. Chemical equilibrium: Gibb\u2019s energy minimum, description of equilibrium, How equilibria respond to pressure, temperature & pH. Applications of thermodynamic principles to biological systems. Statistical thermodynamics: distribution of molecular states (introduce molecular partition function), the internal & the statistical entropy, Boltzmann distribution. Basic kinetic concepts: Reaction stoichiometry, rates of consumption & formation, extent of reaction, rate of reaction, Analysis of kinetic results, influence of temperature on reaction rates. Theories of reaction rates: Kinetic theory of collision, transition state theory of reaction rates, potential energy surfaces and reaction dynamics; diffusion; kinetics of unimolecular and bimolecular reactions; application of kinetics to biological systems. Catalysis: General catalytic mechanism (Arrhenius intermediate, Van\u2019t Hoff intermediate), Acid-base catalysis, acidity function, Enzyme catalysis, Michaelis-Menten equation, Inhibition, effects of pH, Bisubstrate reactions (sequential reaction, ping-pong reactions).\u00a0<\/span><\/p>

Texts \/ References:<\/b><\/p>

1.\u00a0<\/span>Biothermodynamics : the study of biochemical processes at equilibrium, Edsall, J.T., Gutfreund, H., Chichester : John Wiley, 1983<\/p>

2. Biological thermodynamics, Haynie, D.T. Cambridge: Cambridge University Press, 2001<\/p>

3. Thermodynamics and kinetics for the biological sciences Hammes, G.G. J Wiley 2000<\/p>

4. Atkin\u2019s Physical chemistry. 8th ed. P W Atkins & J. dePaula, Oxford Univ Press, 200<\/p>\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t

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BB526\u00a0 Biomolecular Spectroscopy<\/b>\u00a0<\/span><\/h2>

Vasant Semester : <\/strong>January to April<\/p>

Credit structure: <\/b>2 (L), 1 (T), 0 (P), 3 (C)) Half-semester<\/p>\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t

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BB526 Biomolecular Spectroscopy<\/h1>\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t
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Content : UV-visible absorption spectroscopy: Beer-Lambert\u2019s law; applications of UV-visible difference spectroscopy; Circular dichroism in protein analysis; Fluorescence spectroscopy of Biomolecules: Jablonsky diagram; quantum yield, static and dynamic quenching of fluorescence, energy transfer, polarization, anisotropy, time-resolved fluorescence; FT-IR spectroscopy, Nuclear Magnetic Resonance Spectroscopy: chemical shifts, coupling constants, ring currents, paramagnetic shifts, spin-spin and spin-lattice relaxation times, NOE, chemical exchange; Mass spectrometry of biomolecules.<\/span><\/p>

Texts \/ References:<\/b>\u00a0<\/span><\/p>

1. C.R. Cantor & P.R. Schimmel; Biophysical Chemistry, Part-2. W.H.Freeman & Co. 1980.\u00a0<\/span><\/p>

2. J.R. Lalcowicz; Principles of Fluorescence Spectroscopy. Plenum Press. <\/span><\/p>

3. J.D. Campbell & RA. Dwek; Biological Spectroscopv. Benjamin, 1984.<\/p>

4. P.S.C Mathews; Quantum Chemistry of Atoms and Molecules. Cambridge University Press, 1986<\/p>\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t

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BB 645: Drug Discovery and Development<\/strong><\/h2>

Varsha Semester<\/strong> :July to November<\/span><\/p>

Credit structure:<\/strong> 3 (L), 0 (T), 0 (P), 3 (C)) Half-semester<\/span><\/p>\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t

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BB 645: Drug Discovery and Development\n<\/h1>\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t
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Introduction to drug design and discovery, Molecular Recognition, Ligand-based drug design, Bio-structure based drug design, Drug-Like Properties and Decision Making in Medicinal Chemistry, peptide, and Protein Drug Design, Enzyme Inhibitors: Biostructure- and Mechanism-Based Design, Antibiotics, Principles of drug absorption, drug metabolism, and distribution \u2013 intestinal absorption, metabolic stability, Global Regulatory Affairs and different steps involved, Regulatory Objectives.<\/span><\/p>

Text\/References:<\/span><\/p>

1. Krogsgaard-Larsen et al. Textbook of Drug Design and Discovery. 4th Edition. CRC Press<\/span><\/p>

2. Nally, J. D. (2006) GMP for Pharmaceuticals. 6th edition. CRC Press 4. Brody, T. (2016) Clinical Trials: Study Design, Endpoints and Biomarkers, Drug Safety, and FDA and ICH Guidelines. Academic Press.<\/span><\/p>\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t

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BB 617: Biophysical Chemistry\n<\/h1>\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t
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Conformation of Biological Macromolecules, Structure or proteins, Structure of Nucleic acids, Lipids, Conformational analysis and forces that determine protein and nucleic acid structure, Ligand \u2013 Macromolecular interactions, Protein folding, Computer applications in Biology. Spectroscopic methods, Adsorption spectroscopy, Difference, and derivative Spectroscopy as applied to biomolecular interactions, Fluorescence spectroscopy, Membrane Proteins, Nucleic acid probes, Fluidity, Polarity, and Viscosity.<\/span><\/p>

Text\/References:<\/span><\/p>

1. Physical Biochemistry \u2013 Applications to biochemistry and molecular biology, D. Freifelder: W.H. Freeman and Co., 1986.<\/span><\/p>

2. Biophysical Chemistry (Part 1-3), C. R. Cantor and P. R. Schimmel; W.H. Freeman and Co, 1980.<\/span><\/p>

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BB 404 and BB 404(M): Metabolism and Bioenergetics<\/strong><\/h2>

Semester<\/strong> :Full Semester<\/span><\/p>

Credit structure:<\/strong> 3 (L), 0 (T), 0 (P), 6 (C)<\/span><\/p>\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t

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BB 404 and BB 404(M): Metabolism and Bioenergetics\n<\/h1>\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t
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Overview of metabolism; the concept of the flow of matter and energy; thermodynamics of coupled systems and non-equilibrium reactions; Biological energy currencies: high energy bond, reducing power and interconversions of energy forms; classification of a living system based on carbon and energy requirements; methods to study metabolism; carbohydrate and lipid catabolism; glycolysis; TCA cycle; fatty acid oxidation, other metabolic routes of carbon; oxidative phosphorylation; Calvin cycle and other avenues of harvesting light energy; gluconeogenesis; glycogen metabolism; integration of metabolism and concepts of metabolic regulation.<\/span><\/p>

Text\/References:<\/span><\/p>

1. Metabolic Regulation, R.S. Ochs, R.W. Hanson, and J. Halls: Elsevier, 1985.<\/span><\/p>

2. Physical Chemistry, P.W. Atkins; ELBS, 1981.<\/span><\/p>

3. Lehninger Principles of Biochemistry, D.L.Nelson, and M.M.Cox. 4th ed. W.H.Freeman, 2004.<\/span><\/p>

4. Bioenergetics. D.G.Nicholls and S.J.Ferguson, 2nd ed. Academic Press, 2002.<\/span><\/p>\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t

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BB640: Biologics and Biosimilars\u00a0<\/strong><\/h2>

Semester:<\/strong> Half-semester<\/p>

Credit structure:<\/strong> 3 (L), 0 (T), 0 (P), 6 (C))<\/span><\/p>\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t

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BB640: Biologics and Biosimilars \n<\/h1>\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t
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Introduction to Biologics and Biosimilars, Development and its role in Therapeutics, Cell Line Development and Upstream Bioprocessing, cell culture methods, clone selection, and optimization, Bioreactors, Scale-up optimization Critical Quality Attributes for Biologics and Bio-similars, Glycosylation, De-amidation, Charge Variant analysis, Analytical Methods to measure Glycosylation, De-amidation, Charge Variant (AUC, CE, Mass spectrometry) Biophysical and analytical Characterization of Biologics products, Primary, secondary and tertiary structural analysis by various Biophysics Methods, Protein aggregation principle, and analysis by DLS and SE-HPLC, Thermodynamic stability by DSC, ITC Downstream Purification for Biologics, Regulatory Approach for Biosimilars, Globalization of Biosimilars<\/span><\/p>

Text\/References<\/span><\/p>

1. Introduction to Biologic and Biosimilar Product Development and Analysis, Nagel, Karen M. Springer, 2018<\/span><\/p>

2. Biosimilars: Regulatory, Clinical, and Biopharmaceutical Development Editors: Gutka, Hiten J., Yang, Harry, Kakar, Shefali (Eds.) Springer, 2018<\/span><\/p>\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t

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BB 657 : Regulatory Aspects of
Drug Development<\/b><\/p>

Credit Structure<\/b>: 3(L), 0(T), 0(P), 3(C)<\/p>

Dates<\/b>: 2 lectures per week
(5th of Jan to 16th Feb 2024) Time<\/b>: 2 hours each
(Wed\/Fri: 3:30-5:00 pm)<\/p>

Course Instructors<\/b>:Professor Ashutosh Kumar and Dr. Narendra Chirmule<\/p>\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t

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BB 657 : Regulatory Aspects of Drug Development<\/span><\/span><\/b><\/h2>\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t
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Course Description<\/span>:Drug development is at a turning point in human medicine.\u00a0 Over the past three decades, the development of biotherapeutics has revolutionized innovation in medicines.\u00a0 Efficiency and Quality Compliance are critical to achieving innovation and affordability.\u00a0 This course will provide an overview of the multi-dimensional nature of drug development, which involves regulatory, new technologies, statistical, and quality considerations.\u00a0 This 6-week course will introduce the concepts of drug development, which include, pharmacology, toxicology, product development, clinical trials.\u00a0 All of these topics will be addressed based on regulatory requirements by the FDA.\u00a0 Risk assessment and mitigation will be discussed using a role-play process. The content of the course includes seminars, case studies, project reports, and journal article-reviews.<\/p>

\u00a0<\/p>

Text\/Reference:<\/b>
Biophramacheutical Drug Design and Development by Susanna Wu-Pong and Yon Rojanasakaul Second Edition Humanna Press SBN: 978-1-59745-532-92. Introduction to Biologic and Biosimilar Product Development and Analysis by Karen M. Nagel Springer, ISBN: 978-3-319-98428-53. https:\/\/www.sciencedirect.com\/science\/article\/pii\/B97880406690000674. Social Aspects of Drug Discovery, Development and Commercialization https:\/\/doi.org\/10.1016\/B978-0-12-802220-7.00001-6<\/p>\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t

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DH 804 : Magnetic Resonance Imaging<\/b><\/p>

Credit Structure<\/b>: 3(L), 0 (T), 0(P), 3(C)<\/p>

Half Semester Course (Second Half)<\/b><\/p>

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Course Instructors<\/b>:Professor Ashutosh Kumar and Prof. NR Jagannathan, Distinguished Visiting Professor KCDH<\/p>\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t

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DH 804 Magnetic Resonance Imaging: From Physics to Physiology<\/b><\/span><\/font><\/h2>\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t
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Course Description:<\/p>

Basic:\u00a01. An Overview of Magnetic Resonance Imaging,\u00a0Electricity and Magnetism ;2. Nuclear Magnetism, Equilibrium-Saturation The Magnetic Resonance Image;3.\u00a0Radiofrequency Pulse Sequences,\u00a0Magnetic Resonance Imaging Tissue Parameters;4.\u00a0Manipulating Magnetic Resonance Image Contrast, Fourier Transforms in Magnetic Resonance Imaging The Imaging System; 5.\u00a0Magnetic Resonance Imaging Hardware;6. Primary Magnetic Resonance Imaging Magnets, Image Formation;7.\u00a0Digital Imaging, A Walk Through the Spatial Frequency Domain;8.\u00a0Magnetic Resonance Images
Pulse Sequences;9.\u00a0Spin Echo Imaging, Chemical Shift and Magnetization Transfer;10. Steady State Gradient Echo Imaging, Echo Planar Imaging
Applications;11.\u00a0Nuclear Magnetic Resonance Spectroscopy,\u00a0Partially Parallel Magnetic Resonance Imaging 12.\u00a0Magnetic Resonance Angiography, Perfusion Imaging\u00a0 and safety consideration.<\/p>

Text\/Reference:<\/strong>
1. 302223Magnetic Resonance Imaging: Physical and Biological Principles302224 by Stewart C. Bushong. ISBN:3022409780323073547<\/p>

  1. Clinical Magnetic Resonance Imaging302224 by Edelman, Hesselink and Zlatkin. Publisher \u200f : \u200e302240Saunders; 3rd edition (16 November 2005), ISBN-10 \u200f : \u200e3022400721603068\u00a0<\/li>
  2. Magnetic Resonance Imaging 302226 Physical Principles and Sequence Design302224 by Haacke, Brown, ISBN:9780471720850<\/li>
  3. Spin Dynamics: Basics of Nuclear Magnetic Resonance302224 by Malcolm H. Levitt. ISBN: 978-0-470-51117-6<\/li><\/ol>

    \u00a0<\/p>\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/div>\n\t\t\t\t\t<\/div>\n\t\t<\/section>\n\t\t\t\t<\/div>\n\t\t","protected":false},"excerpt":{"rendered":"

    BB525\u00a0 Biological Thermodynamics and Kinetics\u00a0\u00a0\u00a0 Varsha Semester : July to November Credit structure: 2 (L), 1 (T), 0 (P), 3 (C)) Half-semester BB525 Biological Thermodynamics and Kinetics Thermodynamic functions \u2013 U, A, H, S and G. The First law: work, heat, energy, heat transactions, enthalpy, standard enthalpy changes. The Second law: entropy, entropy changes accompanying […]<\/p>\n","protected":false},"author":2,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-23831","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/www.bio.iitb.ac.in\/~ashutoshk\/wp-json\/wp\/v2\/pages\/23831","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.bio.iitb.ac.in\/~ashutoshk\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/www.bio.iitb.ac.in\/~ashutoshk\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/www.bio.iitb.ac.in\/~ashutoshk\/wp-json\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/www.bio.iitb.ac.in\/~ashutoshk\/wp-json\/wp\/v2\/comments?post=23831"}],"version-history":[{"count":97,"href":"https:\/\/www.bio.iitb.ac.in\/~ashutoshk\/wp-json\/wp\/v2\/pages\/23831\/revisions"}],"predecessor-version":[{"id":24408,"href":"https:\/\/www.bio.iitb.ac.in\/~ashutoshk\/wp-json\/wp\/v2\/pages\/23831\/revisions\/24408"}],"wp:attachment":[{"href":"https:\/\/www.bio.iitb.ac.in\/~ashutoshk\/wp-json\/wp\/v2\/media?parent=23831"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}