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August 2010

BS - MS Dual Degree Program

Guidebook of Curriculum

Campus I - Sai Trinity Building, Garware Circle, Pashan, Pune 411 021.

Tel.: +91 20 25908000, Fax : +91 20 25899790

Campus II - 900, NCL Innovation Park, Dr. Homi Bhabha Road, Pune 411 008.

Tel.: +91 20 25908181

www.iiserpune.ac.in

Vision & Mission

lEstablish scientific institutions of the highest

caliber

lMake learning of basic sciences exciting

lEntry into research at early age

where teaching and education is totally

integrated with state-of-the-art research

through

excellent integrative teaching driven by curiosity

and creativity

through a flexible

borderless curriculum and research projects

BS - MS Dual Degree Program

Guidebook

of

Curriculum

August 2010

where tomorrow's science begins today

Contents

Sr. Particulars Page No.

1. Objectives 3

2. General Pattern 3

3. Details of Courses 3

Biology 4

Chemistry 19

Mathematics 31

Physics 43

Inter Disciplinary Courses 57

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010

Guide book of Curriculum

I. Objectives

IISER model of education is concept-based & inquiry-driven, as opposed to

the more traditional content-based models. There is a strong emphasis on the

interdisciplinary nature of today's science, and recognition of the importance

of research experience while doing UG studies.

The courses offered for the UG program at IISER, Pune form part of a

comprehensive program that will enable the students to understand the basic

laws of nature and develop necessary skills to apply them to any desired area

or discipline. The students get trained for a career in basic sciences or any

related applied science or technology.

II. General Pattern

The courses offered during the first two years (semesters I to IV) of course

work are meant as basic courses from the four streams, common and

mandatory for all students and therefore are introductory in nature. These

courses are meant to give a flavor of the various approaches and analyses as

well as to prepare them for advanced courses in later years of study. In

addition there will be Interdisciplinary Courses for computational skills,

scientific computing, mathematical methods etc.

In the third and fourth years (semesters V-VIII), students can choose

advanced courses based on their interest. The courses offered in the first two

years would help them to make an informed judgment to determine their real

interest and their aptitude for a given subject. Students also have the freedom

to choose advanced courses from more than one discipline to achieve

interdisciplinary expertise.

One of the novel features of the curriculum at IISER, Pune is a Lab Training/

Theory project , equivalent to a course of 3 credits, in which the student will

work in a lab with one faculty or do a theory project with one faculty. This is

meant to help the student to be trained by the in-house expertise or facility

which will form a good basis for the project work in the fifth year. Only one

such course per semester is permitted.

The fifth year will be devoted to a thesis by research which completes the

requirements of the program

III. Details of courses

The list of courses offered from each discipline with brief contents and text

books is given below. Other relevant details like objectives, prerequisites,

topic in detail, pattern of assessment, books for study and reference etc. will

be prepared by the course instructor and communicated to the students well in

advance.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 3

BIOLOGY

Semester I

BIO101 Introductory Biology I (3 credits)

Contents

This course introduces students to Biology. It asks fundamental questions

such as what is life and what are its salient features of life. This course aims

at understanding organization of life at different levels. Contents include,

the hierarchical levels of organization in Biology; Shapes and sizes of life

forms; Comparative organization of life forms; Organizational themes in

plants and animals; Variation and diversity of life - bacteria, protists,

fungi, plants and animals. The chemical basis of life: Water, carbon, and

the molecular diversity of life, structure and function of biological

macromolecules.

Text Books :

1. Campbell and Reece (2005) Biology, 7th edition.

2. Raven, Johnson, Losos and Singer (2005) Biology, 7th edition.

3. Alberts, Bray, Hopkin, Johnson, Lewis, Raff, Roberts and Walters (2003)

Essential cell biology, 2nd edition.

4. Bruce Alberts, Alexander Johnson, Julian Lewis, Martin Raff, Keith

th

Roberts, Peter Walter. (2007). Molecular Biology of the Cell. 5 Edition.

BIO 121 Biology Lab I (2 credits)

This practical course will cover basic concepts in biology, cell biology and

cell culturing techniques with an emphasis on 3D's in biology draw,

describe and differentiate. Practicals include: Basics of microscopy; Field

trip; Microscopy of samples; Micrometry of different cells; Staining of

bacteria, fungi, Plant cells, Blood cells and Bone marrow; Osmosis;

Mitosis; Crude cultures Bacteria and Protozoa; Pure culture techniques;

Sterilization and media preparation; Streaking of bacteria; Enumeration

of bacteria

Semester II

BIO102 Introductory Biology II (3 credits)

Contents

This course mainly discusses the molecular mechanisms of various

processes of life. It starts with discussion on Cells as the unit of life.

Contents include, Cell types, from single cell to multi-cellular organism;

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 4

Cell architecture; macromolecular trafficking within and between cells;

Bioenergetics, Cellular respiration and photosynthesis: Respiration and

associated metabolism, light and dark reactions of photosynthesis; Repro-

ductive biology: DNA replication, cell division in prokaryotes, meiosis &

mitosis in eukaryotes. Mendelian, Genetics, Microbial genetics, Viruses

and Human Genetics. Recombinant DNA technology and its applications.

Text Books :

1. Campbell and Reece (2005) Biology, 7th edition.

2. Raven, Johnson, Losos and Singer (2005) Biology, 7th edition.

3. Alberts, Bray, Hopkin, Johnson, Lewis, Raff, Roberts and Walters (2003)

Essential cell biology, 2nd edition.

4. Bruce Alberts, Alexander Johnson, Julian Lewis, Martin Raff, Keith

th

Roberts, Peter Walter. (2007). Molecular Biology of the Cell. 5 Edition.

BIO 122 Biology Lab II (2 credits)

This practical course will cover biochemical, genetic and molecular basis

of life. Practicals include: Glucose estimation; Lipid estimation; Amino

acid Paper chromatography; Protein estimation; Enzyme assay and

Kinetics; Human genetic traits and blood grouping; DNA isolation; DNA

estimation; Transformation; Plasmid isolation; Agarose gel

electrophoresis; Restriction digestion and Ligation; PCR demonstration;

ATC PTC demonstration; Animal handling, inoculation, dissection.

Semester III

BIO 201 Introductory Biology III - Ecology & Evolution (3 credits)

Contents

This is an introductory course that provides a broad overview of concepts

in ecology and evolution. Topics covered will include: Introduction: An

overview of biological processes; Population ecology; Life history

evolution; Community ecology; Species interaction; Behavioral ecology;

Ecosystem dynamics; Population genetics; Macroevolution and diversity

of life.

Text Books :

th

1) Molles (2006) Ecology: Concepts and Applications, 4 Edition, McGraw-

Hill;

2) Templeton, AR. (2006). Population Genetics and Microevolutionary

Theory. Wiley-Liss;

3) Hartl, DL and Clark, AG. (1997). Principles of Population Genetics.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 5

Sinauer Associates; 4) Futuyma, D. (2005) Evolution, Sinauer Associates.

BIO 221 Biology Lab III (2 credits)

This practical course will cover basic concepts in ecology and evolution.

Practicals include: Evolution of Ethnocentrism; Isolation of organisms;

Global Population Dynamics Database; Plant Biodiversity field work;

Growth curve (Factorial design 3 pH 2 temperatures); Effect of

nutritional selection on bacterial growth; Chemical ecology and its impact

on diatom diversity; Behavioral Ecology.

Semester IV

BIO 202 Introductory Biology IV Biology of systems (3 credits)

Contents

This course introduces integrative themes in biology. Using broad

biological systems and building from the previous Introductory Biology

courses, it attempts to demonstrate how hierarchical levels of organization

and complexity are manifest in Biology. Mathematical modeling and

network approaches are also introduced. The course content includes:

comparative organization; signal transduction & signaling networks; gene

expression & gene regulatory networks; integrative themes in

developmental biology and the immune system; neurobiology &

behaviour and modeling/network approaches in systems biology.

Text Books :

th

1) Alberts, B. et al. (2008). Molecular Biology of the Cell. 5 Ed. Garland;

st

2) Alon, U. (2007). An Introduction to Systems Biology. 1 Ed. Chapman and

Hall.

Semester V

BIO 310 Biostatistics (4 credits)

Contents

This course is application oriented with a focus on the statistical techni-

ques for biologists. Topics covered will include: inter alia hypothesis

testing, experimental design, correlation and regression analysis, analysis

of variance, multivariate analysis & elementary time-series analysis. At

the end of this course the students are expected to be familiar with

statistical procedures to a) design experiments, b) perform preliminary

data analysis, and c) initiate complex statistical analysis as needed.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 36

Text Books :

1) Sokal RR and Rohlf HA (1995). Biometry: the principles & practice of

rd

statistics for biological research, 3 Edition, WH Freeman & Co.;

th

2) Zar JH, (1998). Biostatistical analysis, 4 edition, Prentice Hall.

BIO 311 Advanced Cell Biology (4 credits)

Contents

This course covers a wide range of advanced cell biology topics such as,

DNA, chromosomes and genome, DNA replication, repair and recom-

bination, membrane structure, transport, intracellular compartments,

protein sorting and vesicular traffic, energy conversion: mitochondria and

chloroplasts, cell cycle and cell division, mechanisms of cell communi-

cations, the cytoskeleton, cell junctions, adhesion, extracellular matrix

and cell motility.

Text Books :

1) Molecular Biology of the Cell by Alberts, Johnson, Raff, Lewis et al.

th

(2007) 5 Ed. Garland Science;

th

2) Molecular Biology of the Gene by James Watson et al., (2007) 6 Ed.

Benjamin Cummings;

th

3) Molecular Cell Biology by Lodish, Berk, Kaiser et al. (2007) 6 Ed. W. H.

Freeman.

BIO 312 Animal Physiology I (4 credits)

Contents

The course aims at imparting in-depth knowledge of the physiological

processes with emphasis on the human cardio-vascular system and blood;

skeletal and smooth muscle systems; excretion and regulation of the body

fluids; gaseous exchange, transport and tissue respiration; gastrointestinal

physiology and physiology of digestion, endocrines and reproduction.

The course will also include lab-work on the regeneration in hydra,

various organ systems in a teleost fish and rat model, isolated goat tracheal

chain preparation for assay of acetylcholine, evaluation of blood pressure

of rat, and study of histological preparations of various tissues.

Text Books :

th

1) Guyton, A.C. et al. (2008). Textbook of Medical Physiology. 11 Ed. W.B.

Saunders Co.

th

2) Randall, D. et al. (2002). Eckert Animal Physiology, 5 Ed. Freeman.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 7

3) Kronenberg, et al. (2008) Williams Textbook of Endocrinology. W.B.

Saunders Co.

BIO 410 Advanced Biochemistry I (4 Credits)

Contents

Water and life, Biomolecules: Structural & functional aspects of Proteins,

Nucleic Acids, Lipids and Carbohydrates. Protein folding, dynamics and

interaction. The binding of macromolecules. Thermodynamics of ligand:

receptor interactions. Mechanisms of Enzyme Action. Techniques of

Protein and Nucleic acid Purification: Chromatography, electrophoresis,

Ultracentrifugation, nucleic acid fractionation.

Text Books :

1) Metzler DE (2003), Biochemistry: The chemical reactions of living cells,

nd

Volumes I & II, 2 Edition, Academic Press.

BIO 332 Immunology I (3 Credits)

Contents

The lymphoid system and organs, Cell migration and inflammation,

antibody structure, Genetics of antibody generation, B-lymphocyte

development and activation, T-lymphocyte development and activation,

Innate Immune system dendritic, natural killer cells, macrophages,

Major Histocompatibility complexes; The humoral vs. cellular immunity;

Recognition of self vs. non-self, autoimmunity- the breakdown of self-

recognition.

Text Books :

th

1) Kindt TJ, Osborne BA, Goldsby RA (2006), Kuby Immunology, 6 Edition

W.H. Freeman & Company.

BIO 334 Neurobiology I (3 Credits)

Contents

The course introduces neuroscience as a specialized discipline. Course

content includes: evolution and organization of the nervous system;

electrical properties of neurons; ionic basis of membrane potentials and

the action potential; development of the nervous system; synaptic

transmission; experience-dependent synaptic refining & plasticity;

neurobiology of sensory systems; motor functions of the spinal cord; the

autonomic nervous system; introduction to learning and memory.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 8

Text Books :

th

1) Kandel E, et al. (2000). Principles of Neural Science, 4 Ed. McGraw-Hill

Medical;

rd

2) Bear M, et al. (2006). Neuroscience. 3 Ed. Lippincott Williams &

Wilkins;

nd

3) Sanes D, et al. (2005). Development of the Nervous System. 2 Ed.

Academic Press.

BIO 335 Animal Behaviour ( 3 credits)

Contents

This course is an introduction to practices and theories in the study of

animal behavior. Topics covered include: research methods, behaviours to

do with learning, foraging, territoriality, movement, reproduction and

communication. The classes revolve around discussions of scientific

papers, and the students are expected to carry out individual projects

spanning the semester on a species and question of their choice.

Text Books :

1) Krebs, J.R. and Davies, N.B. (1993) An introduction to behavioural

rd

ecology. Blackwell Publishing, 3 ed.

2) Dugatlin, L. A. (2004) Principles of animal behavior. W. W. Norton & Co.

3) In addition, reading assignments will be from Ecology, Evolution and

Behaviour Journals.

Semester VI

BIO 320 Genetics (4 Credits)

Contents

Mendelian and Non-Mendelian Genetics; The Chromosomal basis of

inheritance; Genomes, genomics and the Dynamic Genome; The Genetics

of Bacteria & Bacteriophages; Genetic screens for functional genomics;

Gene isolation and manipulation; Techniques that revolutionized modern

genetics; The utility of the following Model Organisms will be discussed:

Eschereschia coli, Arabidopsis thaliana, Caenorhabditis elegans,

Drosophila melanogaster & Mus Musculus.

Text Books

th

1) Griffiths, AJ et al. (2008), Introduction to Genetic Analysis, 9 Edition,

WH Freeman & Co.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 9

BIO 321 Plant Biology I (4 Credits)

Contents

This course would cover up the basic and advanced knowledge of plant

biology. It will embrace information's of plant Cells, water transport;

mineral Nutrition; photosynthesis- light & carbon reactions; ecological

considerations; solute transport; transporter genes; phloem translocation;

respiration; lipid metabolism; growth & development; phytochrome and

light control of plant development, blue light response, plant hormones

and development, stress physiology.

Text Books :

th

1) Lincoln Taiz and Eduardo Zeiger (2006), Plant Physiology, 4 edition

Sinauer Associates

2) Bob Buchanon, Wilhelm Gruissem and Russel Jones (2007) Bio-

chemistry & Molecular Biology of Plants, IK international Pvt. Ltd.

BIO 412 Microbiology (4 credits)

Contents

Microbial diversity: Cultural and culture independent methods, taxonomy,

functional anatomy of prokaryotic and eukaryotic microbial cells.

Microbial physiology: Unique pathways for fermentation, biodegradation

and biosynthesis. Microbial growth kinetics. Development and differen-

tiation in microorganisms: spores, cysts, biphasic growth, Dictyostelium

development, myxobacterial development, Biofilms and signaling among

microbial cells. Microbial genetics. Principles of disease and epidemio-

logy: Mechanisms of pathogenicity, host parasite interactions, Antimi-

crobial drugs, disease transmission dynamics, public health and prophy-

laxis. Microbial biotechnology and bioengineering: Types of bioreactors,

design of bioreactor, operation, downstream processing, development of

new products, scale up.

Text Books :

1) Tortora GJ, Funke BR and Case CL (2004) Microbiology: An

th

Introduction. 8 Edition, Pearson Education; Birge EA (2006) Bacterial

and bacteriophage genetics. Springer; Nicklin J, Khan N and Killington R

rd

(2006) Microbiology. 3 edition, Taylor and Francis; Mansi ME, Bryce

nd

CFA (2007) Fermentation microbiology and biotechnology. 2 edition,

Taylor and Francis.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 10

BIO 351 Biology and Disease (3 credits)

Prerequisite BIO 311

Contents

This course integrates the biology (cell, molecular and physiology) taught

so far, to develop insights into the biology revealed by disease conditions,

and teach technology development and translation prompted by the

disease condition. Cancer and neurodegenerative disorders will be used as

the disease models. It will cover a range of topics from the biology of

cancer/ neurodegeneration, molecular mechanisms to disease etiology,

screening, diagnosis and treatment.

Text Books :

st

1) Kleinsmith L, (2005), Principles of Cancer Biology, 1 Ed. Benjamin

Cummings;

st

2) Weinberg R, (2006). The Biology of Cancer, 1 Ed. Garland Science;

3) Weinberg RA, (1999). One Renegade Cell: The Quest For The Origin Of

st

Cancer (Science Masters), 1 Ed. Basic Books;

4) Beal MF, Lang AM, Ludolph AC, (2005). Neurodegenerative Diseases:

st

Neurobiology, Pathogenesis and Therapeutics, 1 Ed. Cambridge

University Press;

5) Chesselet M, (2001). Molecular Mechanisms of Neurodegene- rative

Diseases (Contemporary Clinical Neuroscience), Humana Press.

BIO 352 Animal Physiology II (3 credits)

Prerequisite BIO 312

Contents

Thermoregulation in ectothermic and endothermic animals; physiology

of circulation, respiration, excretion, ionic balance in sub-mammalian

vertebrates; physiology of reproduction among different groups of

animals; metamorphosis in amphibians; circulation, ionic balance and

excretion, respiration, digestion, moulting, nervous and neuroendocrine

system, reproduction and life cycle of insects; vision in invertebrates;

special topic parasitism.

Text Books :

th

1) Randall, D. et al. (2002). Eckert Animal Physiology, 5 Ed. Freeman.

nd

2) Hill, R.W. et al. (2008). Animal Physiology. 2 Ed. Sinaur Associates;

th

3) Guyton, A.C. et al. (2008), Textbook of Medical Physiology. 11 Ed. W.B.

Saunders Co.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 11

st

4) Withers, P.C. et al. (1992) Comparative Animal Physiology. 1 Ed.,

Brooks Cole.

BIO353 Immunology II (3 Credits)

Prerequisite BIO 332

Contents

Host-pathogen interactions; Subversion of the host immune responses by

intracellular parasites; Ontogeny and function of dendritic cells;

Autoantibodies in health and disease; Molecular interactions between the

T cell receptor and MHC molecules; Immune synapse; Polyspecificity of

T cell receptor recognition; Molecular mimicry and epitope spreading; T

cell memory; Peripheral tolerance and regulatory lymphocytes; Animal

models of immune dysregulation; Interactions between the immune and

the nervous systems.

Text Books :

th

1) Kindt TJ, Osborne BA, Goldsby RA (2006), Kuby Immunology, 6 Edition

W.H. Freeman & Company;

2) In addition, reading assignments for this course will be from recently

published papers from the primary literature.

BIO 354 Neurobiology II (3 credits)

Prerequisite BIO 334

Contents

Neurobiology of sensory perception; motor control; sexual dimorphism of

brain; brain imaging - EEG, PET, CT, fMRI; neurodegenerative disorders;

neural basis of behavior, arousal and sleep; circadian rhythms; emotions

and the limbic system; higher functions of the brain, learning and memory,

perception and cognition, anxiety and depression

Text Books :

th

1) Kandel, E. et al. (2000). Principles of Neural Science, 4 Ed. McGraw-Hill

Medical;

rd

2) Bear, M. et al. (2006). Neuroscience - Exploring the brain, 3 Ed.

Lippincott Williams & Wilkins;

th

3) Guyton, A.C. et al. (2008), Textbook of Medical Physiology, 11 Ed. W.B.

Saunders Co.

th

4) Purves, D. et al. (2008), Neuroscience, 4 Ed. Sinauer Associates.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 12

Semester VII

BIO 322 Biophysics (4 Credits)

Contents

Laws of Physics and chemistry - thermodynamics and biophysical

chemistry of macromolecules. Biological reactions and interactions -

function aspects of various bio-molecules particularly ion channels, ATP

synthases and motor proteins.

Biophysical techniques; Chromatography, electrophoresis, diffusion,

sedimentation, light scattering; Chemical kinetics - Absorption Spectro-

scopy, Circular dichroism, Emission spectroscopy, light microscopy,

electron microscopy, crystallography, Nuclear Magnetic Resonance,

Mass spectrometry;

Text Books :

1) Van Holde KE, Johnson C, and Ho PS (2005) Principles of Physical

nd

Biochemistry, 2 Edition, Prentice-Hall;

2) Cantor CR, Schimmel PR (1980) Biophysical Chemistry: Part 1 - The

st

Conformation of Biological Molecules. 1 Edition, WH Freeman;

3) Cantor CR, Schimmel PR (1980) Biophysical Chemistry: Part 2 - The

st

Study of Biological Structure and Function. 1 Edition, WH Freeman.

BIO 411 Ecology I (Basic ecology) (4 credits)

Contents

This course will cover the basic theoretical framework of ecology. Topics

covered will include: Introduction - history, philosophy and practice of

ecology; Ecology of individual organisms - physiological ecology;

population ecology - population growth and regulation, evolution of life-

history, species interactions, trophic interactions; Community ecology -

community structure & properties, succession & disturbance; Ecosystem

ecology biodiversity, productivity and energy flow, biogeochemistry.

Text Books :

1) Begon M, Townsend CR, Harper JL (2006). Ecology: from individuals to

ecosystems. 4th edition, Blackwell Publishing.

2) Ricklefs RE, and Miller (2000). Ecology. 4th edition, Freeman and Co.

nd

3) Gurevitch J, Schener SM, and Fox GA (2006). The Ecology of Plants. 2

Edition, Sinaeur and Assciates.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 13

BIO 417 Advanced Biochemistry II (4 Credits)

Contents

Advanced enzyme kinetics and energy metabolism. Metabolic processes

and pathways such as Glycolysis, glycogen metabolism, membrane

transport, Citric acid cycle, electron transport, amino-acid metabolism,

carbohydrate metabolism, photosysnthesis, lipid and nucleotide meta-

bolism will be discussed in detail.

Text Books :

1) Metzler DE (2003), Biochemistry: The chemical reactions of living cells,

nd

Volumes I & II, 2 Edition, Academic Press;

2) Readings will also be assigned from current articles from the primary

literature.

BIO 420 Developmental Biology (4 Credits)

Contents

This course deals with how a single-celled embryo develops into a

complex multicellular individual with all its complexity. It deals with

early development and axial specification; Pattern formation; Deve-

lopment of germ cell layers; growth and differentiation; Metamorphosis,

regeneration and aging; Plant development; Stem cell biology and tissue

repair; Principles of experimental embryology; Development mecha-

nisms of Evolutionary change.

Text Books :

th

1) Gilbert SF, (2010) Developmental Biology, 9 Edition, Sinauer &

Associates;

rd

2) Wolpert L, et al. (2006), Principles of Development, 3 Edition, Oxford

University Press.

BIO 431 Epigenetics (3 credits)

Contents

This course deals with all that goes between genotype to phenotype.

Imprinting in plants and animals; X-inactivation; Gene regulation host

defense, tissue-specifc effects; Molecular mechanisms DNA methylation,

histone modification, euchromatin vs. heterochromatin, RNA silencing,

micro RNA, RNAi-mediated gene regulation; Methods of detecting

epigenetic mechanisms; interplay of epigenetic mechanisms in develop-

ment, differentiation, regeneration and aging.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 14

Text Books :

st

1) Allis & Reinberg (2007), Epigentics, 1 Edition, Cold Spring Harbor

Laboratories Press.

BIO 433 Mathematical Biology (3 credits)

Contents

This course is an introduction to mathematical modeling in biology.

Topics covered will include: Phase-plane analysis of (nonlinear) ODEs;

Introduction to modeling in neuroscience (including a classification of

neural models based on bifurcations); Enzyme kinetics, including a

derivation of Michaelis-Menten through a slow-fast analysis; Elementary

geometric singular perturbation theory. Reduction strategies for larger-

dimensional systems; Modeling, ecological and evolution systems; Stoc-

hastic models, enzymes, channels and pumps. Students will be expected to

be comfortable with a programming enviroment of their choice: Matlab,

C, Fortran or XPPAut.

Text Books :

1) Ellener SP, Guckenheimer J, Dynamic Models in Biology (2006),

Princeton University Press;

2) Keener J, Sneyd J, Mathematical Physiology (2001), Springer;

st

3) Dayan P, Abbott LF, Theoretical Neuroscience (2005), 1 Edition, MIT

Press;

st

4) Edelstein-Keshet, Mathematical Models in Biology (2005), 1 Edition,

SIAM: Society for Industrial and Applied Mathematics.

BIO 452 Plant Biology II (3 Credits)

Prerequisite BIO 321

Contents

The objective of this course is to understand the value of applied plant

biology. Topics such as plant cell, tissue & organ culture, biotechnology in

crop improvement; transgenic plants, production of phytochemicals,

neutraceuticals, bio-fuels; phyto-remediation; pharmacognosy, molecular

farming; secondary metabolites, common diseases of plants and plant/

pathogen interaction, molecular mechanisms, quantitative genetics,

molecular markers and plant breeding, seed technology and site visits to

plant biotech companies are covered in this course.

Text Books :

1) Rainer Fischer and Stefan Schillberg (2004), Molecular Farming, Wiley-

VCH Verlag GMBH & Co;

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 15

2) Indra K. Vasil and Trevor A. Thorpe (2005) Plant Cell and Tissue culture,

Springer;

nd

3) MK Razdan (2002) Introduction to Plant Tissue Culture, 2 Edition,

Oxford and IBH.

Semester VIII

BIO 421 Bioinformatics & Computational Biology (4 credits)

Contents

This course covers a range of computational methods, which address a

broad spectrum of problems in functional genomics, including; sequence

analysis (alignment, motif discovery, gene annotation), pattern

recognition/discovery in expression data, phylogenetic trees, phylogeny,

and alignment. Also included in this course are topics in computational

modeling of biological processes, data-mining, algorithm development,

statistical and mathematical analyses. Perl and BioPerl will be used to

implement algorithms and will be covered as necessary, no prior

programming knowledge is required.

Text Books :

1) R. Durbin, S. R. Eddy, A. Krogh, and G. Mitchison (1999), Biological

Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids,

Cambridge University Press;

2) D. Gusfield, Algorithms on strings, trees, and sequences : computer

science and computational biology (2007), Cambridge Univ. Press.

BIO 422 Evolution (4 credits)

Contents

Population genetics: Hardy-Weinberg principle and the deviations from it,

Wright's F-statistics; Quantitative Genetics: Additive genetic variance,

Fisher's fundamental theorem, Adaptive landscape; Life-history

evolution; Selection: multilevel selection, sexual selection, experimental

evolution; Application: Aging, evolutionary psychology, evolutionary

medicine, evo-devo, evolution and society.

Text Books :

1) Nicholas H. Barton, Derek E.G. Briggs, Jonathan A. Eisen, David B.

Goldstein, Nipam H. Patel (2007). Evolution. Cold Spring Harbor

Laboratory Press.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 16

BIO 423 Ecology II (Advanced ecology) (4 credits)

Prerequisite BIO 411

Contents

This course will cover current topics in Ecology by readings and

discussions from the primary literature. The broad focus will be on:

History, Philosophy & Practice of Ecology; Physiological Ecology;

Behavioural Ecology; Evolutionary Ecology; Ecological Genetics;

Population Ecology; Molecular Ecology; Community structure;

Biodiversity and Climate Change.

Text Books :

th

1) Ricklefs RE, and Miller (2000). Ecology. 4 edition, Freeman and Co.;

nd

2) Gurevitch J, Schener SM, and Fox GA (2006). The Ecology of Plants. 2

Edition, Sinaeur and Assciates;

th

3) Krebs JR and Davis NB (1997) Behavioural Ecology. 4 Edition,

Blackwell Science;

4) In addition readings from the primary literature will be assigned from

journals: Ecology; Ecology Letters; Journal of Ecology; Annual Reviews

in Ecology Evolution and Systematics; Evolution; Oikos; Oecologia;

Molecular Ecology; American naturalist.

BIO 451 Human Genetics (3 Credits)

Contents

Single locus, complex multi-factorial traits and inheritance; population

genetics, linkage disequilibrium, and mapping; cytogenetics, molecular

genetics, biochemical genetics, clinical genetics, epigenetics, gene-

environment interactions; genetic counseling and gene therapy; Myths

and realities of the genetic basis and inheritance of intelligence, behavior,

diseases; Model systems for Human Genetics.

Text Books :

th

1) Lewis R (2009), Human Genetics, 9 Edition, McGraw-Hill.

th

2) Cummings M, (2008), Human Heredity: Principles and Issues, 8 Edition,

Brooks Cole.

BIO 454 Structural Biology (3 Credits)

Contents

Structure-function relationship of bio-polymers (proteins, nucleic acids,

lipids and membranes); DNA replication and recombination; Protein

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 17

synthesis - translation; Protein folding and degradation; Enzyme function;

Cell motility and transport; Structural aspects of cell-cell interactions;

Methods of structure determination (X-ray, NMR), structure prediction,

determining the structure of major macromolecular machines in action

(Case studies: ribosome, the polyketide synthase, motor proteins etc) and

challenges in structural biology.

Text Books :

1) Liljas A. et al. (2009), Structural Biology, paperback Edition, World

Scientific Publishing Company.

BIO 490 Introduction to Mathematical Modeling (3 credits)

Contents

This course will cover approaches in the formulation and analysis of

mathematical models in physics, chemistry & biology. Topics covered

will include dimensional analysis; differential equations; probability and

optimization; modeling using ordinary and partial differential equations;

stochastic models; numerical methods and function fitting; principal

component analysis (PCA) and single value decomposition (SVD);

wavelets, neural networks; time series analysis of data; topics in climate

modeling. Extensive use will be made of simulations.

Text Books :

1) Gershenfeld N. (1998). The Nature of Mathematical Modeling.

Cambridge University Press;

2) Ermentrout B. (2002) Simulating, analyzing, and animating dynamical

systems: A guide to XPPAUT for researchers and students. Society for

Industrial and Applied Mathematics (SIAM).

BIO491 Literature review (3 credits)

Contents

This main objective of this course is to familiarize students with the

primary scientific literature. This will include use of database search tools;

reading, analyzing, and critically evaluating the scientific literature; and,

effectively summarizing, communicating (oral-written) this information.

Course content will include: Introduction to the scientific literature what

is the scientific literature? Primary, secondary and tertiary scientific

literature; Reading & evaluating the scientific literature, searching the

scientific literature; Conducting a literature review; Scientific writing

plagiarism and referencing, format and style; Oral presentations.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 18

Text Books :

1) Reading assignments for this course will be from a variety of scientific

journals.

CHEMISTRY

Semester I

CHM 101 Introductory Chemistry I - Physical Chemistry

(3 credits)

Contents

Basic principles of physical chemistry like thermodynamics; chemical

kinetics; kinetic theory of gases; quantum mechanics, and chemical

bonding.

Text Books :

1) Physical Chemistry a Molecular Approach: Donald A. McQuarrie and

John D. Simon, Viva Books (1997).

th

2) Physical Chemistry: P. W. Atkins, 7 edition Oxford University Press.

CHM 121 Chemistry Lab I (2 credits)

Contents

Acid-base titrations using pH meter and conductivity methods; potentio-

metric titration; heat of neutralization; kinetic studies of ester hydrolysis;

activation parameter calculations; enzyme kinetics; colligative properties

of solutions; and polarimetry.

Text Books :

1) Experiments in Physical Chemistry: C. W. Garland, J. W. Nibler, D. P.

th

Shoemaker, 8 edition, McGraw Hill Higher Education.

th

2) Atkin's Physical Chemistry: P. Atkins, J. de Paula, 8 edition, W.H.

Freeman.

Semester II

CHM 102 Introductory Chemistry II - Inorganic Chemistry

(3 credits)

Contents

Atomic structure, periodic table and the concept of periodicity; chemical

bonding; acids-bases; oxidation and reduction; representative chemistry

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 19

of Transition metals and main-group elements.

Text Books :

1) Inorganic Chemistry: Shriver and Atkins, 4th edition, Oxford University

Press.

2) Concepts and Models of Inorganic Chemistry: D. McDaniel and

Alexander, 3rd edition, Wiley.

CHM -122 Chemistry Lab II (2 credits)

Contents

General chemistry experiments; acid-base, complexometric & iodometric

titrations; synthesis and characterization of coordination complexes; soap

making; synthesis of alums and polyoxometalates; spectrophotometric

estimation; photochemical reduction of metal complexes.

Semester III

CHM 201 Introductory Chemistry III - Organic Chemistry

(3 credits)

Contents

Chemical Bonding: VSEPR theory; hybridization/LCAO; molecular

orbital theory. Arrow pushing concepts; inductive effects; hyperconju-

gation; acidity and basicity of organic molecules, pKa concept; stereo-

chemistry: conformational analysis, optical activity. Organic reactions:

nucleophilic substitution; elimination; addition; electrophilic aromatic

substitution. Basic characterization of organic molecules; chemistry of

life; polymer chemistry.

Text Books :

1) Organic chemistry: J. Clayden, N. Greeves, S. Warren, P. Wothers, 1st

Edition, Oxford University Press.

2) Organic Chemistry: T. W. Graham Solomons, Craig B. Fryhle, 9th

Edition, Wiley

Semester IV

CHM 202 Introductory Chemistry IV - Fundamentals of

Spectroscopy (3 credits)

Contents

Light-matter interaction; rotational spectroscopy; vibrational spectro-

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 20

scopy; Raman spectroscopy; electronic spectroscopy; nuclear magnetic

resonance spectroscopy; electron spin resonance spectroscopy.

Text Books :

1) Fundamentals of molecular spectroscopy: C. N. Banwell and E. M.

th

McCash, 4 edition, Tata McGraw-Hill, 1994.

2) Introduction to spectroscopy: D. L. Pavia, G. M. Lampman, G. S. Kriz and

th

J. R. Vyvyan, 4 edition, Brooks Cole, 2008.

3) Spectrometric identification of organic compounds, R. M. Silverstein, F.

th

X. Webster, 7 edition, Wiley, 2005.

CHM 221 Chemistry Lab III (2 credits)

Contents

Synthesis and characterization of a wide range of aliphatic and aromatic

substances; techniques such as reflux, distillation, vacuum filtration,

purification and determination of yield and purity; stereospecific addition

reactions, elimination reactions, condensation reactions, electrophilic and

nucleophilic substitution reactions, rearrangements, multi-step organic

synthesis, synthesis of fluorescent molecules and organic dyes.

Semester V

CHM 320 Symmetry and Group Theory (4 credits)

Contents

Symmetry elements, point group and its applications; Great Orthogo-

nality Theorem; reducible & irreducible representations; Mulliken symbol;

character table; direct product; application of direct product concept to

spectroscopy as well as in quantum mechanics; Projection operator and its

application to symmetry adapted linear combination (SALC);

construction of molecular orbital correlation diagram of simple and

complex molecules; Hckel molecular orbital for conjugated system.

Text Books :

rd

1) Chemical Applications of Group theory: F. A. Cotton, 3 edition, Wiley

Interscience, 1990.

2) Molecular symmetry & group theory: R. L. Carter, John Wiley & Sons,

1998;

3) Symmetry and Spectroscopy: D. C. Harris and M. D. Bertolucci, Dover

publications, 1978.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 21

CHM 311 Physical Organic Chemistry (4 credits)

Contents

Structure and bonding, valence bond theory, qualitative MO theory;

bonding and structures of reactive intermediates; solution and solvent

properties and non-covalent binding forces, conformational analysis of

acylic and cyclic systems, stereoelectronic effects and stereochemical

concepts, aromaticity and electronic effects on structure, structural effects

on stability and reactivity, kinetic postulates (Hammond postulate, Curtin-

Hammett principle, Marcus theory etc.,); reaction kinetics; kinetic isotope

effects and isotopic labeling experiments; linear free energy relationships.

Organic reaction mechanisms: substitution reactions at aliphatic and

aromatic centers; reactions involving additions and eliminations; physical

organic considerations of thermal pericyclic reactions; and sigmatropic

rearrangements.

Text Books :

1) Modern Physical Organic Chemistry: E. Anslyn, E. Dougherty, University

Science Books, 2006.

th

2) March's Advanced Organic Chemistry: M. B. Smith, J. March, 6 edition,

Wiley Interscience.

3) Advanced Organic Chemistry Part A, Structure and Mechanism: R. J.

th

Sundberg, F. A. Carey, 4 Edition, Kluwer/Plenum Press.

nd

4) Physical Organic Chemistry: N. Isaacs, 2 Edition, Addison-Wesley-

Longman.

CHM 312 Main Group Chemistry (4 credits)

Contents

General chemistry- the covalent bond: VSEPR theory, Valence bond

theory, MO theory. acids and bases. Chemistry of the main group elements:

general trends, hydrogen, alkali metals, alkaline earths, chemistry of group

13-16 elements, inorganic chains, rings, cages, and clusters; chemistry of

halogens; the noble gases; main group organometallic chemistry.

Text Books :

1) Advanced Inorganic Chemistry by F. A. Cotton, G. Wilkinson, C. A.

Murillo and M. Bochmann, 6th Ed. Wiley, 2003.

2) Chemistry of the Elements by N. N. Greenwood and A. Earnshaw, 2nd Ed.

Butterworth- Heinemann, 2005.

3) Organometallics by Christoph Elschenbroich, 3rd Ed. Wiley-VCH, 2006.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 22

CHM 331 Self-assembly in Chemistry (3 credits)

Contents

Introduction to self-assembly and supramolecular chemistry; types of

self-assembly and non-covalent interactions, pre-organization; Crown

ethers, Cryptand, metallo-supramolecules; self-complementary two,

three and multiple hydrogen bonding systems; liquid crystals; mesogens

self-organization; anionic, cationic and neutral micelles, critical micelle

concentration; bolaamphiphilies; self-assembly in DNA; protein and

peptides; drug delivery applications.

Text Books

1) Comprehensive Supramolecular Chemistry, Pergamon, vol.1-10, 1999.

2) Core concepts in Supramolecular chemistry and Nano-chemistry: J. W.

st

Steed, 1 edition, Wiley.

3) Introduction to Soft mater Synthetic and Biological Self-Assembly

Materials: I. W. Hamley, Wiley revised edition.

CHM 332 Separation Principles and Techniques (3 credits)

Contents

Theory of separation; chomatogrophic Separations; Chomatogrophic

techniques-GC, GC MS, HPLC; Bio-Separations-Electrophoresis,

Centrifugation DNA/Protein separations/purifications; Polymer separa-

tions-Green Separation Process Separation using Zeolite and Polymer

membranes. Chiral separations, Molecular recognition, Molecule

imprinting, Polymer separations.

Text Books :

1) An Introduction to Separation Sciene : B.L. Karger, L.R. Snyder, C.

Horvath, 1st edition, Wiley Interscience.

2) Handbook of Separation Process Technology: R.W. Rousseau, Wiley

Interscience.

3) Separation Process Principles: J.D. Seader, E.J. Henley, 2nd edition,

Wiley.

CHM 340 Advanced Organic Chemistry Lab (3 credits)

Contents

Classical name reactions, oxidations, reductions, rearrangements, and

multi-step reactions; purification techniques such as column chromato-

graphy; characterization using IR, UV, NMR and mass spectrometer.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 23

Semester VI

CHM 310 Quantum Chemistry (4 credits)

Contents

Schrdinger equation; exact solutions for: a particle in a box; harmonic

oscillator; rigid rotor and hydrogen atom; approximate methods like

perturbation and variational methods; molecular orbital and valence bond

theories; Hartree-Fock approximation.

Text Books :

nd

1) Quantum Chemistry: Donald A. McQuarrie, 2 edition, University

Science Books, 2007.

th

2) Quantum Chemistry: Ira N. Levine, 6 edition, Prentice Hall, 2008.

3) Modern Quantum Chemistry: Introduction to Advanced Electronic

Structure Theory: A. Szabo, N. Ostlund, Dover Publication, 1996.

CHM 321 Organic Synthesis I (4 credits)

Prerequisite CHM 311

Contents

Nucleophilic substitution, Interconversion of carboxylic acid derivatives;

protecting and deprotecting functional groups; protection of hydroxyl-,

amino-, carbonyl-, and carboxylic acid-groups. Electrophilic additions,

cyclizations, reductions. Formation of carbon-carbon single bond via

enolates:1,3-Dicarbonyl and related compounds, Direct alkylations of

simple enolates, imines and hydrazone anions; enamines; aldol conden-

sation, Mannich reaction, Claisen condensation, Robinson annulations;

organometallic reagents; reagents and procedures for alcohol oxidation,

oxidation procedures to caroboxylic acids, Allylic oxidation of alkenes

Text Books :

1) Advanced Organic Chemistry, Part B: Reactions and Synthesis: F. A.

th

Carey, R. J. Sundberg, 5 Edition, 2007, Springer.

st

2) Organic chemistry: J. Clayden, N. Greeves, S. Warren, P. Wothers, 1

edition, 2001, Oxford University Press.

CHM 322 Transition Metal Chemistry (4 credits)

Contents

Introduction to coordination compounds; nature of metal-ligand bonding;

stability of coordination compounds; inorganic spectroscopy;

organometallic chemistry; catalysis; bioinorganic chemistry.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 24

Text Books :

1) Advanced Inorganic Chemistry: Cotton, Wilkinson, Murillo and

Bochmann, 6th edition, Wiley Interscience.

2) Chemistry of the Elements: Greenwood and Earnshaw, 2nd edition,

Butterworth-Heinemann.

3) Inorganic Chemistry: J. E. Huheey, E. A. Keiter, R. L. Keiter, 4th edition,

Prentice Hall.

CHM 334 Physical Chemistry of Solutions (3 credits)

Contents

Thermodynamic description of mixtures, electrolytes in solution, thermo-

dynamic description of electrochemical cells, ionic liquids, polymer and

gel electrolytes, chemical sensors, biosensors, fuel cells, impact on

biochemistry, phase equilibria.

Text Books :

th

1) Physical Chemistry: Gordon M. Barrow, 5 edition, McGraw Hill college,

1996.

th

2) Physical Chemistry: P. W. Atkins and Julia de Paula, 8 edition, W. H.

Freeman, 2006.

th

3) Physical Chemistry: I. N. Levine, 6 edition, McGraw Hill Science, 2008.

CHM 351 Bioorganic Chemistry (3 credits)

Contents

Basic structure of nucleic acids, proteins, lipids, and carbohydrates;

biological functions and biosynthesis of precursors: amino acids,

nucleotides, fatty acids, lipids and secondary metabolites; primary and

secondary metabolism; bioenergetics; coenzymes and cofactors; peptide

antibiotics and their biological activities.

Text Books :

th

1) Lehninger Principles of Biochemistry, M. Cox and D. Nelson, 5 Edition,

2008, W. H. Freeman and Company.

rd

2) Biochemistry, D. Voet and J. G. Voet, 3 Edition, 2004, John Wiley &

Sons.

st

3) Bioorganic Chemistry: Nucleic Acids, Edt. S. M. Hecht, 1 Edition, 1996,

Oxford University Press, USA ;

st

4) Bioorganic Chemistry: Peptides and Proteins, Edt. S. M. Hecht, 1

Edition, 1998, Oxford University Press, USA

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 25

CHM 360 Advanced Inorganic Chemistry Lab (3 credits)

Contents

Synthesis of inorganic compounds such as coordination complexes,

organometallic, main group compounds; characterization & investigation

by spectroscopic methods such as IR, UV and NMR techniques; quanti-

tative estimation by redox, complexometric, and precipitation titrations,

spectrophotometric analysis, and solvent extraction.

Semester VII

CHM 410 Advanced Molecular Spectroscopy (4 credits)

Contents

Fundamentals of lasers and laser systems; advanced Raman spectroscopy;

electronic spectroscopy; advanced laser spectroscopic techniques, appli-

cation of lasers in various fields of chemistry, environmental and medical

application of lasers.

Text Books :

nd

1) High Resolution Spectroscopy: J. M. Hollas, 2 edition, Wiley, 1998.

nd

2) Laser fundamentals: William T. Silfvast, 2 edition, Cambridge

University Press, 2008.

3) Laser Chemistry: Spectroscopy, Dynamics and Applications: H. H. Telle,

st

A. G. Urena, R. J. Donovan, 1 edition, Wiley, 2007.

CHM 411 Organic Synthesis - II (4 credits)

Contents

Formation carbon-carbon bonds: palladium-catalyzed coupling reactions:

multicomponent reactions; Domino, cascade, and tandem reactions;

retrosynthestic analysis; saturated heterocycles and stereoelectronics &

aromatic heterocyclic: structures, reations and synthesis; asymmetric

synthesis: chemistry of natural products.

Text Books :

1) Advanced Organic chemistry, Parts A and B: F. A. Carey and R. J.

th

Sundberg, 5 edition, Springer.

th

2) March's Advanced Organic Chemistry: M. Smith and J. March, 6 edition,

Wiley-Interscience.

nd

3) Organic Synthesis, the Disconnection Approach: S. G. Warren, 2 edition,

Wiley.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 26

st

4) Organic chemistry: J. Clayden, N. Greeves, S. Warren, P. Wothers, 1

edition, Oxford University Press.

5) Classics in Total Synthesis: Targets, Strategies, Methods: K. C. Nicolaou,

E. J. Sorensen, Wiley-VCH, 1996.

CHM 412 Advanced Inorganic Chemistry (4 credits)

Contents

Reactions mechanisms of transition metal complexes, electron transfer

and Marcus theory; inorganic photochemistry; metal clusters and

organometallic chemistry.

Text Books :

th

1) Inorganic Chemistry: J. E. Huheey, E. A. Keiter, R. L. Keiter, 4 edition,

Prentice Hall.

2) Reaction Mechanisms of Inorganic & Organometallic Systems: R. B.

rd

Jordan, 3 edition, Oxford University Press.

rd

3) Organometallics: C. Elschenbroich, 3 edition, Wiley-VCH.

CHM 430 Advanced Physical Chemistry Lab (3 credits)

Contents

Advanced instrumentation techniques: spectrophotometry; fluorimetry,

differential scanning calorimetry (DSC); thermal gravimetric analysis

(TGA); cyclic voltametry (CV); as well as its application to study a variety

of chemical problems; quantum chemistry-, symmetry and group theory-

based computational experiments.

CHM 431 Chemical Biology (3 credits)

Contents

Chemical & enzymatic methods to synthesize nucleic acids, and peptides;

biomolecular interactions: protein-nucleic acid, protein-small molecule,

nucleic acid-small molecule. Combinatorial approaches to drug discovery;

high-throughput screening; chemical glycomics; & biophysical techniques.

Text Books :

1) Nucleic Acids in Chemistry and Biology, Edt. M. Blackburn, M. Gait, D.

rd

Loakes & D. Willaims, 3 Edition, 2006, RSC Publishing.

st

2) Chemical Biology: A Practical Course, H. Waldmann and P. Janning, 1

Edition, 2004, Wiley-VCH.

3) Chemical Biology: From small molecules to systems biology and drug

design, Edt. S. L. Schreiber, T. Kapoor and G. Wess. Volume 2, 2007,

Wiley-VCH.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 27

CHM 432 Solid State Chemistry (3 credits)

Contents

Crystal structure, crystal diffraction by X-rays, neutrons and electrons,

electronic properties and band theory of solids, magnetic properties,

dielectric & optical properties, superconductivity, mechanical properties,

thermal analysis, materials synthesis.

Text Books :

nd

1) Basic Solid State Chemistry: A. R. West, 2 edition, Wiley, 1999.

2) Solid State Chemistry and its applications: A. R. West, Wiley, 1987.

3) New Directions in Solid State Chemistry: C. N. R. Rao and J.

Gopalakrishnan, Cambridge University Press, 1997.

CHM 436 Molecular Modeling and Simulation (3 credits)

Contents

Model systems and potentials, force fields, statistical mechanical applica-

tions, molecular dynamics (MD), Brownian dynamics, Langevin dynamics,

different Monte Carlo techniques, special MD techniques, advanced

simulation techniques and applications, introduction and application of

different MD programs (AMBER, CHARMM, GROMAS), quantum

chemical modeling, semi-empirical methods, ab initio methods, density

functional methods, application on optimization and transition state

determination, intrinsic reaction coordinate calculation, introduction to

quantum chemistry programs (Gaussian, GAMESS), introduction to

combined QM/MM Methods.

Text Books :

1) Computer Simulation of Liquids: M. P. Allen, D. J. Tildesley, Oxford

University Press, 1989.

2) Introduction to Computational Chemistry: F. Jensen, 2nd edition, Wiley,

1998.

Semester VIII

CHM 420 Structural Methods and Analysis (4 credits)

Contents

Principles and applications of infrared, ultraviolet, fluorescence, electron

spin resonance, nuclear magnetic resonance spectroscopy and mass

spectrometry.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 28

Text Books :

1) Fundamentals of molecular spectroscopy: C. N. Banwell and E. M.

th

McCash, 4 edition, Tata McGraw-Hill;

2) Introduction to Organic Spectroscopy: L. M. Harwood, T. D. W. Claridge,

st

1 edition, Oxford University Press;

st

3) Electron Spin Resonance Analysis and Interpretation: P. H. Reiger, 1

edition, RSC Publishing;

st

4) Mass Spectrometry Basics: C. G. Herbert, R. A. W. Johnstone,1 edition,

CRS Press.

CHM 421 Polymer Chemistry (4 credits)

Contents

Basic concepts, molecular weight distribution, linear, branched, cross-

linked, grafted- polymers, polymer crystallization, glass transition,

solution and melt viscosity, polymer rheology, step-polymerization,

addition polymers, radical, cationic, anionic living polymerization, block

copolymers, liquid crystalline polymers, ring opening polymerization,

physical and reactive blends, nano-composites and synthetic-natural fiber

composites, concepts of conducting polymers and their applications in

opto-electronics and sensors, one and 3D dimensional nano-materials,

stereochemistry, NMR FT-IR, mass spectrometry of polymers.

Text Books :

th

1) Principles of Polymerization: G. Odian, 4 edition, Wiley Interscience.

rd

2) Text Book of Polymer Science: F. W. Billmeyer Jr., 3 edition, John Wiley

& Sons.

3) Polymers: Chemistry and Physics of Modern Materials: J. M. G. Cowie,

rd

3 edition, CRC Press.

CHM 422 Statistical Thermodynamics (4 credits)

Contents

Canonical, Microcanonical and Other Ensembles, Fluctuation, Bose-

Einstein and Fermi-Dirac Statistics, Non-interacting ideal monatomic,

diatomic gases & solids, Partition Function, Liouville Equation, Chemical

Equilibrium, Distribution Functions, Debye Hckel Theory, Statistical

Mechanical theory of Phase Transition, Time Correlation Function

Formalism

Text Books :

nd

1) Statistical Mechanics: D. A. McQuarrie, 2 edition, University Science

Books, (Viva Books, Indian edition 2003).

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 29

2) An Introduction to Statistical Thermodynamics: T. L. Hill, Dover

Publications, New York, 1986.

3) Introduction to Modern Statistical Mechanics: D. Chandler, Oxford

University Press, 1987.

CHM 423 Medicinal Chemistry (4 credits)

Contents

Principles of drug discovery; biochemistry of disease; drug action at

receptors; how does the message get received? how does a receptor

change shape? drug development: quantitative structure-activity relation-

ships (QSAR); drug metabolism; prodrugs and drug delivery systems.

Text Books :

1) Foe's Principles of Medicinal Chemistry: T. L. Lemke and D. A. Williams,

th

6 edition, Lippincott Williams & Wilkins;

rd

2) An Introduction to Medicinal chemistry: G. Patrick, 3 edition, Oxford

University Press.

3) The Organic Chemistry of Drug Design and Drug Action: R. Silverman,

nd

2 edition, Academic Press.

CHM 433 Photochemistry (3 credits)

Contents

The laws of photochemistry; Primary processes in photochemical reactions;

Fluorescence & phosphorescence; Quenching phenomenon; Fluore-

scence Resonance Energy Transfer (FRET); Dimerization reaction;

Excimer and exciplex; Energy transfer processes; Diffusion controlled

rate constants; Some typical photochemical reactions; Quantum yield of a

reaction; Photosensitized reactions; Photochemical equilibrium; Flash

photolysis; Pulse radiolysis.

Text Books :

st

1) Modern Molecular Photochemistry: N. J. Turro, 1 edition, University

Science Books, 1991.

rd

2) Principles of Fluorescence Spectroscopy: J. R. Lakowicz, 3 edition,

Springer, 2006.

3) Fundamentals of Photochemistry: K. K. Rohatgi Mukherjee, Revised

edition, New age International, 1986.

CHM 435 Bioinorganic Chemistry (3 credits)

Contents

Metal ions in biology; inorganic chemistry of biological systems;

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 30

dioxygen carriers and its reactions, blue copper proteins and

photosynthesis, metal-sulfide proteins.

Text Books :

1) Bio-inorganic Chemistry: I. Bertini, H. B. Gray, S. J. Lippard, J. S.

st

Valentine, 1 edition, Viva.

th

2) Inorganic Chemistry: J. E. Huheey, E. A. Keiter, R. L. Keiter, 4 edition,

Prentice Hall.

3) Inorganic Electronic Structure & Spectoscopy: E. I. Solomon & A. B. P.

st

Lever, 1 edition, Wiley Interscience.

MATHEMATICS

Semester I

MTH 101 Introductory Mathematics I - Linear Algebra

(3 credits)

Contents

Definition and examples of Fields, Solving a system of Linear Equations,

Matrices, Row and Column operations, Invertible matrices, Elementary

Matrices and revisit to solving linear equations.

n

Vector Space and examples, Subspace, Special example of R and its

coordinates, Sum and intersection of subspaces, Solution space of linear

equations, Linear independence of vectors, Basis and Dimension,

Coordinates with respect to different basis.

Linear Transformations (LT) between two vector spaces, Representing LT

by a Matrix, Rank-Nullity Theorem, Linear Operators (LT on same space)

and square matrices, Algebra of Linear operators, Base Change and

Similarity of matrices.

Determinant and its properties, Inverse of a matrix, Eigen value and Eigen

vector, Characteristic Polynomials, Diagonalisation and Triangulation of

Matrices, Cayley Hamilton Theorem, Minimal Polynomial of a Matrix.

Inner Product Spaces, Cauchy-Schwartz Inequality, Orthogonal basis,

Grahm orthogonalisation process, Orthogonal Group.

Text Books :

1) Linear Algebra: Kenneth Hoffman and Ray Kunze, Second Edition,

Prentice-Hall India.

2) Linear Algebra Problem Book: Paul R. Halmos, Dolciani Mathe- matical

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 31

Expositions, The Mathematical Association of America;

3) Linear Algebra and its Applications: Gilbert Strang, Brooks Cole.

Semester II

MTH 102 Introductory Mathematics II - Single variable

calculus (3 credits)

Contents

Set Theory, Real Numbers, Complex Numbers and properties, Finite,

Countable and Uncountable sets, Euclidean Spaces. Sequences and

Series, Convergence and various Tests. Limit and Continuity of functions

of one variable, Differentiation, Chain Rule, Mean Value Theorems,

Taylor Expansion, Applications. Integration, Fundamental Theorem of

Calculus, Change of variables and applications.

Text Books :

nd

1) Calculus: T. M. Apostol, Vol.-I, 2 Edition, Wiley;

2) Calculus: Michael Spivak, 4th Edition, Cambridge University Press.

Semester III

MTH201 Introductory Mathematics III - Probability &

Statistics (3 credits)

Contents

Axiomatic definition of probability, Theorems on probability. Conditional

probability and independence. Bayes' theorem. Random variables, their

properties. Some standard discrete & continuous variables. Mathematical

expectation, variance, moments, moment generating function. Chebyshev's

inequality. Functions of a random variable, their distributions & moments.

Joint, marginal and conditional distributions, independence of random

variables. Law of large numbers, Central limit theorem, Sampling

distributions.

Estimation of parameters: Maximum likelihood and method of moments.

Properties of best estimates. Testing of hypotheses: Neyman-Pearson

Lemma, standard tests for one and two sample problems.

Text Books :

th

1) A First Course in Probability: Sheldon Ross, 6 Edition, Prentice-Hall;

th

2) Introduction to probability models: Sheldon Ross, 8 Edition, Academic

Press, Inc.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 32

3) An Introduction to Probability and Statistics: Vijay, K. Rohatgi, A. K. Md.

nd

E. Saleh, 2 Edition, Wiley-Interscience.

4) Probability and Statistics in Engineering: William W. Hines, Douglas C.

th

Montgomery, David M. Goldman, Connie M. Borror, 4 Edition, Wiley.

5) Introduction to Probability Theory and Its Applications, William Feller,

rd

Vol-1, 3 Edition, Wiley.

Semester IV

MTH 202 Introductory Mathematics IV - Multivariable

Calculus (3 credits)

Contents

Vector functions of one variable and their derivatives. Functions of several

variables, partial derivatives, chain rule, gradient & directional derivative.

Tangent planes and normals. Maxima, minima, saddle points, Lagrange

multipliers, exact differentials.

Repeated and multiple integrals with application to volume, surface area,

moments of inertia. Change of variables. Vector fields, line and surface

integrals. Green's, Gauss and Stokes' theorems and their applications.

Text Books :

1) Calculus: T. M. Apostol, Vol.- II, 2nd Edition, Wiley, 1969;

2) Calculus and Analytic Geometry: G. B. Thomas and R. L. Finney, 6th/9th

Edition, Narosa/Addison Wesley/Pearson, 1985/1996;

th

3) Calculus- Concepts and Contexts: James Stewart, 4 Edition, Brookes

Cole.

Semester V

MTH 310 Analysis (4 credits)

Prerequisite MTH 102

Contents :

Real & Complex Number System, Metric Spaces, Compact & Connected

metric spaces, Complete Metric spaces and completion, Numerical

sequences and series, Concept of Limit of a sequence, Continuous

functions, Differentiable functions, Mean Value Theorems, Riemann

Integration, Sequences and Series of Functions, Uniform Convergence,

Stone Weierstrass Theorem.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 33

Text Books :

rd

1) Principals of Mathematical Analysis: Walter Rudin, 3 Edition, McGraw-

Hill;

nd

2) Mathematical Analysis: T. M. Apostol, 2 Edition, Addison-Wesley.

3) Introduction to Topology & Modern Analysis: George F. Simmons,

Krieger Publishing Company.

4) Calculus on Manifolds: Michael Spivak, W. A. Benjamin

MTH 311 Algebra- Group Theory (4 credits)

Prerequisite MTH 101

Contents

Definition of Groups & Homomorphisms, Examples, Lagrange's Theorem,

Normal subgroups and Quotient Groups, Group Action, Cayley's

Theorem, The Class Equation, Sylow Theorems, Direct Products, Semi-

direct Products, Nilpotent Groups and Solvable Groups.

Rings and examples, Polynomial Rings.

Text Books :

nd

1) Abstract Algebra: D. S. Dummit and R. M. Foote, 2 Edition, Wiley;

nd

2) Topics in Algebra: I. N. Herstein, 2 Edition, Wiley.

rd

3) Algebra: Serge Lang, Revised 3 Edition, Springer

4) Algebra: Thomas W. Hungerford, Springer.

MTH 312 Discrete Mathematics (4 credits)

Contents

Set Theory: Definition of set, Relations, Equivalence relations and

equivalence classes, Principle of mathematical induction, Posets, Chains

and well-ordered sets.

Combinatorics: Principles of addition and multiplication, Arrangements,

Permutation and combinations, Multinomial theorem, Partitions and

allocations, Pigeonhole principle, Inclusion-exclusion principle,

Generating functions, Recurrence relations.

Graph Theory: Graphs and digraphs, Eulerian cycle and Hamiltonian

cycle, Adjacency and incidence matrices, Vertex coloring, Planarity, trees,

Spanning trees, Minimum spanning trees.

Text Books :

1) Discrete Mathematics with Applications to Computer Science, J.P.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 34

Tremblay and R.P. Manohar, McGraw Hill, 1989;

2) Introductory Discrete Mathematics, V. K. Balakrishnan, Dover, 1996;

3) Graph Theory, F. Harary, Narosa, 1995;

th

4) Discrete Mathematics and applications: Kenneth Rosen, 6 Edition,

McGraw-Hill;

nd

5) A course in combinatorics: J. H. Van Lint and R. M. Wilson, 2 Edition,

Cambridge University Press.

MTH 313 Graph Theory (4 credits)

Contents

The Basics: graphs, paths & cycles, connectivity, trees & forests, bipartite

graphs, contraction and minors, Euler tours, Hamilton Cycle; Matching,

Covering and Packing: matching in bipartite graphs, matching in general

graphs, packing and covering; Connectivity: 2-connected graphs and

subgraphs, the structure of 3-connected graphs, Menger's Theorem;

Planar Graphs: topological prerequisites, drawing, Kuratowski's theorem,

algebraic planarity criteria, plane duality; Coloring: coloring maps and

planar graphs, coloring vertices, coloring edges, perfect graphs; Flows:

flows in networks, k-flows for small k, flow-coloring duality, Tutte's flow

conjectures; Infinite graphs; Ramsey Theory for Graphs; Random graphs.

Text Books :

rd

1. Graph Theory, 3 edition, Reinhard Diestel, Springer.

2. Introduction to Graph Theory, Gary Chartrand and Ping Zhang, Tata McGraw-

Hill Edition.

MTH 469 Mathematical Biology (3 credits)

Contents

An introduction to modeling and analysis of biological systems. The focus

of the course is two-fold: classical models in mathematical biology, and

the biophysical bases of construction of new models. The course will

cover a wide variety of topics, some examples of which are: phase-plane

analysis of (nonlinear) ODEs, Introduction to modeling in neuroscience

(including a classification of neural models based on bifurcations),

enzyme kinetics, including a derivation of Michaelis-Menten through a

slow-fast analysis, elementary geometric singular perturbation theory,

some reduction strategies for larger dimensional systems, modeling:

ecological and evolution, stochastic models, enzymes, channels and

pumps, pattern formation, cell cycle modeling, systems biology.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 35

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010

Text Books :

1) Mathematical Models in Biology: Leah Edelstein-Keshet, SIAM: Society

for Industrial and Applied Mathematics

2) Mathematical Physiology, 1 & 2: James Keener and James Sneyd,

Springer.

3) Theoretical Neuroscience: Peter Dayan and L. F. Abbott, The MIT Press.

4) Nonlinear Dynamics & Chaos: With applications to Physics, Biology,

Chemistry and Engineering, Steven H. Strogatz, Westview Press.

Semester VI

MTH320 Complex Analysis (4 credits)

Contents

Algebra of complex numbers, Analytic functions, Polynomials, Rational

functions, Sequences, Series, Power series, Abel's Limit theorem.

Exponential and trigonometric functions, Conformality, Analytic

functions in regions, conformal mappings. Linear transformations, cross

ratio, Cauchy's theorem in a disc, Cauchy's integral formula, The calculus

of residues. Riemann Zeta function, Riemann mapping theorem.

Text Books :

rd

1) Complex Analysis: Lars Alhfors, 3 Edition, McGraw Hill;

2) Functions of One Complex Variable I: John B. Conway, Graduate Texts in

Mathematics, Springer

3) Complex function Theory: Donald Sarason, American Mathematical

Society.

MTH322 Topology (4 credits)

Prerequisite MTH310

Contents :

Topological Spaces, Examples, Continuous maps, Quotient Spaces,

Connectedness, Compactness, Countability and separation axioms,

Tychonoff Theorem, Uryshon's Lemma, Tietz Extension Theorem,

Metrization Theorems, Fundamental Group of Topological Spaces.

Text Books :

1) Topology : James R. Munkres, Prentice-Hall;

2) Basic Topology : M. A. Armstrong, Springer;

3) Introduction to Topology and Modern Analysis : George F. Simmons,

Krieger Publishing House.

36

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010

MTH324 Vector Space and Modules (4 credits)

Prerequisite MTH311

Contents

Vector Space, Basis, Linear Transformations, Representing LT by a

Matrix, Algebra of Linear operators, Base Change and Similarity of

matrices.

Determinant and its properties, Inverse of a matrix, Eigen value and Eigen

vector, Characteristic Polynomials, Diagonalisation and Triangulation of

Matrices, Cayley Hamilton Theorem, Minimal Polynomial of a Matrix.

Inner Product Spaces, Cauchy-Schwartz Inequality, Orthogonal basis,

Grahm Orthogonalisation process, Orthogonal Group.

Modules, Structure Theory of Module over PID, Jordan and Rational

canonical form.

Text Books :

nd

1) Linear Algebra: Kenneth Hoffman and Ray Kunze, 2 Edition, Prentice-

Hall India;

2) Algebra : M. Artin, Prentice-Hall India;

3) Linear Algebra Problem Book: Paul R. Halmos, Dolciani Mathe- matical

Expositions Number 16, The Mathematical Association of America.

th

4) Linear Algebra and its Applications: Gilbert Strang, 4 Edition, Brooks

Cole;

5) Advanced Linear Algebra: Steven Roman, Graduate Texts in

Mathematics, Springer;

6) Further Linear Algebra: T. S. Blyth and E. F. Robertson, Springer.

MTH341 Group Theory and Applications (3 credits)

Prerequisite MTH311

Contents

Sylow's Theorem, Direct and Semidirect Product, Classification of groups

2 3

of order p and p , Solvable Groups, p-groups. Generators and relations,

Presentation of a group, Free Groups, Free Products, HNN extension.

Linear Groups GL and SL , Flags, Borel subgroups and parabolic

n n

subgroups, Simplicity of PSL .

n

Text Books :

1) Groups and Representation: J. L. Alperin and R. B. Bell, Graduate Texts in

Mathematics, Springer;

37

2) A Course in the Theory of Groups: Derek J. S. Robinson, Graduate Texts

in Mathematics, Springer.

MTH363 Theory of Algorithms (3 credits)

Prerequisite: MTH 312

Contents

Algorithm analysis, order arithmetic, time & space complexities, average

& worst case analysis, lower bounds. Algorithm design techniques: divide

and conquer, search and traversals, dynamic programming, backtracking.

Sorting and searching algorithms (insertion sort, quick sort, heap sort,

merge sort). Graph Algorithms: Connectivity, shorter path, spanning

trees, topological sorting. Algorithms for set union-find problems.

Text Books :

1) Design and Analysis of Algorithms, A.V. Aho, J.E. Hopcroft, J.D. Ullman,

Addition and Wesley, 1976.

2) Fundamentals of Computer Algorithms, E. Horowitz and S. Sahni,

Galgotia Publishers, 1984;

3) 3) Data Structures and Algorithms, K. Melhorn, Vol. 1 and 2, Springer

Verlag, 1998;

4) Introduction to Algorithms, Cormen, Leiserson and Rivest, Prentice Hall-

India, 2002;

5) Combinatorial Optimization: Algorithms and Complexity, C.H.

Papadimitriou and K.Steiglitz, Prentice Hall-India, 1992.

Semester VII

MTH 410 Measure Theory & Integration (4 credits)

Prerequisite MTH310

Contents

Theory of Function of one variable, Measurable Sets, Lebesgue Measure,

Measurable Functions, Riemann Integral and Lebesgue Integral,

Convergence Theorems, Differentation and Integration.

Text Books :

rd

1) Real Analysis: H. Royden, 3 Edition, Prentice-Hall;

2) Measure Theory: Paul R. Halmos, Graduate Texts in Mathematics,

Springer

rd

3) Real & Complex Analysis: Walter Rudin, 3 Edition, McGraw-Hill.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 38

MTH 413 Differential Topology (4 credits)

Prerequisite MTH 310

Contents

n

R and Euclidian Spaces, Topological Manifolds, Function of several

Variable, Continuity and Differentiability of functions of several

variables, Differentiable manifolds, Tangent Spaces, Inverse Function

Theorem, Submanifolds, Local immersion theorem, local submersion

theorem, differential forms, Integration on Manifolds, Stokes' Theorem,

de Rham's theorem.

Text Books :

1) An Introduction to Differentiable Manifolds and Riemannian Geometry:

William M. Boothby, Academic Press;

2) Foundations of differentiable manifolds and Lie groups: Frank W. Warner,

Graduate texts in Mathematics, Springer;

3) Introduction to Smooth Manifolds: John M. Lee, Graduate texts in

Mathematics, Springer.

MTH 414 Field Extensions and Galois Theory (4 credits)

Prerequisite MTH311

Contents

Fields, Field Extension, Irreducible Polynomials, Degree of extension,

Algebraic Extension, Finite Extension, Splitting Field & Algebraic Closure,

Separable extension, Normal Extension, Galois Extension, Main theorem

of Galois Theory, Applications, Quadratic and Cyclotomic extension.

Text Books :

1) Abstract Algebra: D. S. Dummit and R. M. Foote, 2nd Edition, Wiley

2) Galois Theory of Algebraic Equations: Jean-Pierre Tignol, World

Scientific Publishing Company;

3) Field Theory: Steven Roman, Graduate Texts in Mathematics, Springer;

rd

4) Algebra: Serge Lang, Revised 3 Edition, Springer.

MTH443 Representation Theory of Finite Groups (3 credits)

Prerequisite MTH 311

Contents

Revision of Modules & Group Actions, G-Modules and Representations,

Character Theory and orthoganility relations, Simple and Semisimple

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 39

modules, Simple and Semisimple Rings, Wedderburn's Theorem, Revisit

to Character Theory, Character Table of Cyclic groups, Abelian groups,

Quaternion groups, S ; S , Dihedral groups, GL (F ) along with some

3 4 2 q

topics form below: (i) Induced Representations and Induced Characters,

(ii) Representations of GL (F ) and SL (F ), (iii) Young Tabluex and

2 q 2 q

Representation Theory of S , (iv) Real Characters, Orthogonal and

n

Symplectic Characters, Schur index, (v) Rationality Questions, (vi) Weyl

Duality.

Text Books :

1) Linear Representations of Finite groups : J. P. Serre, Graduate Texts in

Mathematics, Springer;

nd

2) Representation and Characters of Groups : G. James and M. Liebeck, 2

Edition, Cambridge University Press;

3) Representations of Finite and Compact Groups : B. Simon, American

Mathematical Society;

4) Representation Theory: A first Course : W. Fulton and J. Harris, Graduate

Texts in Mathematics, Springer.

MTH344 Commutative Algebra (3 credits)

Prerequisite MTH311

Contents

Rings, Prime and Maximal ideal, Modules, Nakayama Lemma, Ring of

fractions, Localization, Chain Conditions, Noetherian and Artinian Rings,

Noether Normalisation and Hilbert Nullstellansatz.

Text Books :

1) Introduction to Commutative Algebra: M. F. Atiyah and I. G.

Macdonald, Westview Press.

2) Steps in Commutative Algebra: R. Y. Sharp, Cambridge University Press.

3) Commutative Algebra with a view towards Algebraic Geometry: David

Eisenbud, Graduate Texts in Mathematics, Springer.

MTH 491 Recent Trends in Mathematics (3 credits)

Contents

This is to familiarize students with the areas of Mathematics where current

research is going on. This course consists of guest lectures held under

Mathematics Seminar Series.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 40

Text Books :

1) Books, articles and research papers recommended by the speakers.

Semester VIII

MTH420 Functional Analysis (4 credits)

Prerequisite MTH410

Contents

Hilbert Spaces, Normed Linear Spaces, Banach Spaces, Hahn-Banach

Theorem, Open Mapping Theorem, Closed Graph Theorem, Banach

Fixed Point Thereom, Compact Operators, Spectral Theorem.

Text Books :

1) Introduction to Topology and Modern Analysis: George F. Simmons,

Krieger Publishing House.

2) A course in Functional Analysis: John B. Conway, Graduate Texts in

Mathematics, Springer.

3) Functional Analysis: B. V. Limaye, Halsted Press;

4) Introductory Functional Analysis with Applications: Erwin Kreyszig,

Wiley.

MTH421 Number Theory (4 credits)

Prerequisite MTH321

Contents

Solving Polynomials, Algebraic Numbers and Integers, Integral Bases,

Dedekind Domains, Ideal factorization, Ideal Class Group, Finiteness of

Class Group, Dirichlet's Unit Theorem.

Text Books :

1) Number Fields: Daniel A. Marcus, Universitext, Springer;

2) Problems in Algebraic Number Theory: M. RamMurty and Jody

Esmonde, Graduate Texts in Mathematics, Springer;

3) Algebraic Number Theory: Serge Lang, Graduate Texts in Mathe- matics,

Springer.

MTH422 Applicable Mathematics - Cryptography (4 credits)

Contents

Classical Cryptography; Shannon's Theory; Block Ciphers: Data

Encryption Standard and the Advanced Encryption Standard;

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 41

Cryptographic Hash Functions ; The RSA Cryptosystem and Factoring

Integers; Public-key Cryptography and Discrete Logarithms; Signature

Schemes; Pseudo-random Number Generation; Identification Schemes

and Entity Authentication; Key Distribution; Key Agreement Schemes;

Public-Key Infrastructure; Secret Sharing Schemes

Text Books :

rd

1) Cryptography: Theory & Practice: Douglas R. Stinson, 3 Edition,

Chapman and Hall/CRC.

2) Introduction to Cryptography: Johannes. A. Buchmann, Undergraduate

texts in Mathematics, Springer;

3) Handbook of Applied Cryptography: Alfred J. Menezes, Paul C. van

Oorschot and Scott A. Vanstone, CRC Press.

MTH 448 Computer Algebra (3 credits)

Prerequisite MTH311, MTH321

Contents :

Computation with finite groups using GAP, computation with

multivariable polynomials using Grobner Basis.

Text Books :

1) An introduction to Grobner bases: W. Adams, American Mathematical

Society.

MTH455 Algebraic Topology (3 credits)

Prerequisite MTH311, MTH322

Contents :

Fundamental groups of topological spaces, Covering spaces, Axioms of

singular homology theory, Excision, Mayer-Vietoris sequence, Jordan

curve theorem, Quotient spaces, CW complexes, Cohomology theory, cup

products, cohomology rings, Universal coefficient theorems, Kunneth

theorem, Eilenberg-Zilber theorem, Kunneth theorem for cohomology,

Poincare duality, Cap products, Lefschetz duality, Alexander duality.

Text Books :

1) Elements of Algebraic topology: James R. Munkres, Westview Press;

2) Algebraic Topology: Allen Hatcher, Cambridge University Press;

3) Topology and Geometry: G. E. Bredon, Graduate Texts in Mathematics,

Springer;

4) An introduction to algebraic topology: Joseph J. Rotman, Graduate Texts

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 42

in Mathematics, Springer 5) A basic course in algebraic topology: W.

Massey, Graduate Texts in Mathematics, Springer.

MTH470 Mathematical Modeling (3 credits)

Contents

Formulation and analysis of mathematical models in physics, chemistry

and biology. Mathematical methods include dimensional analysis,

differential equations, probability and optimization. Simulations will be

used extensively. The essential ideas necessary will be developed during

the course, and students are expected to participate in designing and

constructing models, and analyzing them.

Text Books :

1) The Nature of Mathematical Modeling: Neil Gershenfeld, Cambridge

University Press;

2) Simulating, Analyzing, and Animating Dynamical Systems: A Guide to

XPPAut for Researchers and Students: Bard Ermentrout, Society for

Industrial Mathematics.

MTH 490 Trends in Mathematics (3 credits)

Contents

Lectures by guest faculty and internal faculty on current research in

Mathematics.

Text Books

Papers, Books etc. will be recommended at the time of the lecture by the

Instructors.

PHYSICS

Semester I

PHY101 World of Physics I (3 credits)

Contents

An exposure to mathematical methods, classical mechanics, classical

electrodynamics and quantum mechanics with applications.

Text Books :

th

1) University Physics- H D Young & R A Freedman-11 edn-Pearson Edn

2006.

2) Mechanics- Berkeley Physics Course-Vol I- Tata McGraw Hill (2008)

3) Electricity & Magnetism- Berkeley Physics Course-Vol II- Tata McGraw

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 43

Hill (2008)

4) Quantum Physics- Berkeley Physics Course-Vol IV- Tata McGraw

Hill(2008)

PHY121 Physics Lab I (2 credits)

Experiments: 1. Simple Pendulum, 2. Torsional Pendulum: Modulus of

rigidity, 3. Young's modulus, 4. Coefficient of friction: Euler's relation, 5.

Faraday's and Lenz's law of electromagnetic induction, 6. Magnetic field

measurement, 7. Measuring techniques for inductance and capacitance, 8.

Solar cell: I-V characteristics and efficiency

Course material will be provided at the beginning of semester.

Semester II

PHY102 World of Physics II (3 credits)

Contents

An exposure to statistical mechanics, condensed matter physics, physics

of materials, astrophysics, atomic molecular and optical physics and

dynamical systems with recent trends and applications.

Text Books :

1) Statistical Physics- Berkeley Physics Course-Vol V- Tata McGraw Hill

(2008)

2) Concepts of Modern Physics by A.Beiser, Tata McGraw Hill

Education6th edn 2006

nd

3) Modern Physics- Kenneth Krane- 2 edn John Wiley( 2002)

4) Introduction to Modern Physics- J D Walecka- World Scientific (2008)

Semester III

PHY201 Classical Physics (3 credits)

Contents

An introductory course on classical mechanics and classical electro-

dynamics. The classical mechanics part comprises of Lagrangian for

simple systems, Harmonic oscillator, small oscillations and rotational

dynamics etc. The electrodynamics course would offer an introduction to

the concepts of electro and magneto statics, introduction of Coulomb's

law, Ampere's and Faraday's law, Lenz's law, Maxwell's equations and

electromagnetic waves.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 44

Text Books :

1) Classical mechanics- R D Gregory - Cambridge University Press (2008)

rd

2) Mechanics-L D Landau & E M Libshitz- 3 edn Elsevier (2007)

rd

3) An Introduction to Electrodynamics - D. J. Griffiths, 3 Ed., Pearson

(2006).

PHY221 Physics Lab III (2 credits)

Experiments: 1. Thermal expansion coefficient, 2. Thermal conductivity,

3. Stefen's law, 4. Thermistors, 5. Newton's rings, 6. Diffraction using a

grating, 7. Malu's law, 8. Resolving power of telescope and prism,

Semester IV

PHY202 Quantum & Statistical Physics (3 credits)

Contents

An introductory course to quantum mechanics and statistical physics.

Motivation and postulates of quantum physics, vector space and

operators, uncertainty principle, harmonic oscillator and square wells and

some elementary concepts of atoms and molecules etc. The statistical

physics part will deal with laws of thermodynamics, temperature, entropy,

thermodynamic potentials, random walk, ensembles and probability

distribution.

Text Books :

nd

1) Principles of Quantum Mechanics R Shankar, 2 Ed., Springer (2008)

2) Fundamentals of Statistical and Thermal Physics Frederick Reif,

McGraw Hill (1985).

PHY222 Physics Lab IV (2 credits)

Experiments: 1. Particle-size determination using a laser source, 2.

Determination of Brewster angle and refractive index, 3. Determination of

numerical aperture and divergence of a given laser beam, 4. The Cornu's

method: determination of Elastic constants, 5. Determination of

Rydberg's constant, 6. Determination of the specific charge e/m for

electron, 7. Michelson-Morley's experiment, 8. Electron diffraction, 9.

Hall effect, 11, Determination of band gap.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 45

Semester V

PHY310 Mathematical Methods (4 credits)

Contents

Vectors & Tensors, Matrices, Group Theory, Sequences and Series,

Complex Variables, Differential Equations, Orthogonal Functions,

Legendre Polynomials, Bessel Functions, Fourier Series and Fourier

Transform, Laplace Transform, Green's function .

Text Books :

th

1) Essential Mathematical Methods for Physicists- Weber & Arfken, 5

edition Academic Press Elsevier(2005)

2) Mathematical Methods for Physics and Engineering K F Riley, M P

rd

Hobson & S J Bence, 3 Ed., Cambridge University Press (2006).

PHY311 Classical Mechanics (4 credits)

Contents

Euler Lagrange equation- Brachistochrone - Lagrange's equation from

variational principle- integrals of motion- conservation theorems &

symmetries Hamiltonian- canonical equations - Poisson brackets-

Symplectic formulation-Canonical transformations- Hamilton Jacobi

theory- Action angle variables

Central force motion- integrals- Kepler problem- scattering -Small

oscillations- normal modes- linear triatomic molecule-lattice vibrations

Continuous systems- classical fields, Classical perturbation theory-

nonlinear oscillators-Hamiltonian chaos

Text Books :

1) Classical Mechanics- A contemporary approach-J V Jose & E J Saletan-

Cambridge University Press (2006)

rd

2) Classical Mechanics H Goldstein, C Poole & J Safko-- 3 ed-Pearson

(2008)

3) Classical Dynamics of Particles and Systems S T Thornton and J B

Marion, Brooks/Cole (2004).

PHY312 Classical Electrodynamics (4 credits)

Contents

Electrostatics and magnetostatics in dielectric media, solution of Laplaces

eqn in free space and in dielectric media, magnetic vector potential, ferro-

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 46

magnetism and the B-H curve, Maxwell's equations, Gauge transfor-

mations, EM waves, reflection, refraction, transmission coefficients.

Text Books :

rd

1) Classical Electrodynamics J D Jackson, 3 Ed., Wiley Eastern Ltd

(1962).

rd

2) An Introduction to Electrodynamics D J Griffiths, 3 Ed., Prentice Hall

(2006).

PHY330 Advanced Physics Lab I (3 credits)

Experiments : 1. Multi-frequency excitation and imaging, 2. Diffusion

measurements, 3. Measurement of Stokes parameter of light, 4. Velocity

distribution of atoms in a gaseous phase & temperature dependence of the

velocity.

PHY 333 Symmetries in Nature (3 credits)

Contents

Spatial transformations-rotations, translations, reflections, dilations,

Moving frames and space time symmetry, Classification of physical

quantities according to transformation properties, Symmetries and

classical conservation laws, Symmetry applied to waves and wave

functions: examples from optics, atomic and molecular physics. Quantum

numbers, degeneracy, selection rules, Crystal symmetry and its

constraints on physical properties, Symmetry breaking by bifurcation,

Continuous phase transitions and broken symmetry

Text Books :

th

1) Elements of Group theory for physicists- A W Joshi-4 edn New Age Int

Pub (2007)

2) Symmetry- H Weyl- Princeton Univ Press (1983)

3) Group Theory and Quantum Mechanics- M Tinkham- Courier Dover Pub

( 2003)

PHY337 Classical Optics (3 credits)

Contents

Nature of light, propagation of light, interaction of light with matter,

reflection, refraction, interference, diffraction, polarization, Optical

properties of metals and semiconductors in bulk and at nanoscale.

Text Books :

th

1) Optics Eugene Hecht, 4 Ed., Dorling Kindersley (india) Pvt Ltd (2006)

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 47

2) Optical Properties of Solids Anthony Mark Fox, Oxford University

Press ( 2001)

PHY351 Gravitation & Cosmology (3 credits)

Prerequisite PHY 310

Contents

The course will cover advanced special relativity, basic general relativity

and cosmology.

Gravitation: four vectors and SR concepts in four vector notation,

introduction to action principle and SR dynamics from action principle,

Development of tensor algebra and calculus leading up to curvature,

Einstein's equation from action principle and its basic properties including

the weak field limit of Newtonian gravity, Schwarzschild solution and

classical tests of relativity; basic ideas of black hole physics, introduction

to gravitational waves.

Cosmology: Some basic introductions to contents and scales of universe,

Friedmann metric and its basic kinematic properties , Dynamics of the

FRW universe; basic solutions., Thermal history of the universe starting

from BBN leading up to CMBR, Introduction to more advanced topics

like inflation, structure formation, dark energy etc.

Text Books :

rd

1) The classical theory of fields- L D Landau & E M Libshitz- 3 edn Elsevier

(2007)

2) Theoretical Astrophysics Vol 1- T Padmanabhan-Cambridge University

Press (2005)

Semester VI

PHY321 Quantum Mechanics I (4 credits)

Prerequisite PHY 310

Contents

Postulates and uncertainty principle, vector space and operators, represen-

tations and transformations, Schroedinger, Heisenberg and interaction

pictures of quantum dynamics, harmonic oscillator, hydrogen atom, angular

momentum, approximation methods, symmetry & conservation laws .

Text Books :

nd

1) Principles of Quantum Mechanics R Shankar, 2 Ed., Springer (2008)

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 48

2) Quantum Mechanics (Vol. 1) C Cohen Tannoudji, B Dau and R Laloe,

John Wiley & Sons (2005).

3) Modern Quantum Mechanics J J Sakurai, Revised Edition, Addison-

Wesley Publishing Co. (2009).

PHY322 Statistical Mechanics (4 credits)

Prerequisite PHY311

Contents

Hamiltonian dynamics & Liouville's equation, microcanonical, canonical

and Grand canonical ensembles, free energy & thermodynamic relations,

B-E and F-D statistics and indistinguishable particles, phase equilibrium,

phase transitions, diffusion and other transport processes, non equilibrium

systems, master equation and Fokker-Planck equation.

Text Books :

nd

1) Statistical Mechanics K Huang, 2 Ed., John Wiley &Sons (2005)

nd

2) Statistical Mechanics R K Pathria, 2 Ed., Elsevier (2008).

PHY323 Advanced Physics Lab II (4 credits)

Experiments:1. Spin-spin and spin-lattice relaxation, 2.cross-polarization

transfer, 3. Dynamic light scattering, 4. Selection rules of atomic

transition and Zeeman splitting of atomic levels.

PHY334 Astronomy & Astrophysics (3 credits)

Contents

Physics of Stars: Stellar structure and composition, evolution; compact

stellar objects, Active Galactic Nuclei: Radio galaxies, quasars, Galaxies

and Galaxy Clusters: Galaxy structure and classification; Phenomena in

galaxy clusters (X-ray gas; gravitational lensing; radio sources),

Cosmology: High redshift Universe, Cosmic microwave background,

StructureFormation

Text Books :

1. Sparke, L. S.; Gallagher III, J. S. (2000). Galaxies in the Universe: An

Introduction. Cambridge University Press.

2. Verschuur, G.L.; Kellermann, K.I. (1988) Galactic & Extragalactic Radio

Astronomy. Springer-verlaag.

3. Phillips, A.C. (1999) The Physics of Stars (Manchester Physics Series).

John Wiley & Sons.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 49

PHY352 Fluid Dynamics (3 credits)

Prerequisite PHY 310

Contents

This course will be an introduction to the basics of fluid dynamics with an

emphasis on astrophysical and geophysical applications.

Applicability of the fluid approximation, conservation laws, and a build

up towards the Navier Stokes equations. approximations to the full Navier

Stokes equations and their realms of applicability, viscous and inviscid

flows, applications to astrophysical situations such as the solar wind, and

accretion disks around black holes geophysical applications of fluid dynamics.

Text Books :

1) The Physics of Fluids and Plasmas, Arnab Rai Choudhuri- Cambridge

University Press ( 2004)

2) An Invitation to Astrophysics, T. Padmanabhan- World Scientific (2006).

nd

3) Geophysical Fluid Dynamics, Joseph Pedloski- 2 edn Springer (1987)

PHY353 Relativity and Electrodynamics (3 credits)

Prerequisite PHY312

Contents

Special relativity, relation to Maxwell's equations, covariant formulation

of electrodynamics, elements of general relativity.

Text Books :

1) Radiative Processes in Astrophyscis- Rybicki & Lightman, John Wiley &

Sons

rd

2) Classical Electrodynamics 3 Eds, J.D. Jackson, Wiley Eastern

PHY355 Statistical Methods in Data Analysis ( 3 credits)

Contents

Review of random variables, probability distributions with examples

from real world, measures of central moments and deviation, stationery

and ergodic process. Least squares fitting of linear and non-linear models,

parametric and non-parametric estimation, confidence limits, hypothesis

testing, Markov chains. case studies.

Text Books :

1) Probability, Random Variables & Stochastic Processes, A. Papoulis and S

Unnikrishnan Pillai, 4th Edition, McGraw Hill, 2002

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 50

2) Numerical Recipes, by Press, Teukolsky, Vetterling & Flannery, 3rd

edition, Cambridge University Press

Semester VII

PHY410 Condensed Matter Physics (4 credits)

Prerequisite PHY 310

Contents

Crystal structures, Bravais lattice, diffraction and Bragg law and Laue

equation etc, Bloch function, Bands, weak binding and strong binding

theory of band formation, Drude - Sommerfeld theory of conduction,

semiclassical theory of conduction, Hartree-Fock approximation and

exchange interaction, magnetic phase transitions.

Text Books :

1) Solid State Physics N W Ashcroft and N D Mermin, Brooks/Cole

Publishers ( 2009).

th

2) Introduction to Solid State Physics C Kittel, 8 Ed., John wiley & Sons

(2005).

3) Advanced Solid state Physics Philip Phillips, Overseas Press (2008).

4) Principles of Condensed Matter Physics P M Chaikin and T C Lubensky,

Cambridge University Press (2004)

PHY413 Electronics (4 credits)

Contents

Introduction to semiconductors, Band Gap, P-N Junctions, Diodes,

BJT,Field Effect Transistors, Transistor characteristics, electronic

transport, Amplifiers, Photo electric devices, Digital circuits, concept of

logic gates and Fabrication

Text Books :

1) The Art of Electronics - P.Horowitz and W.Hill, Cambridge University

nd

Press- 2 edn (2001)

2) Electronic Principles - A.P. Malvino, McGraw Hill Higher Education

(2007)

3) Electronic Devices & Circuits- J. Millman & C.E. Halkias, McGraw

Hill(2008)

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 51

PHY414 Computational Physics (4 credits)

Contents

Introduction to programming, advanced numerical techniques, Solutions

to ordinary and partial differential equation; Solutions to eigenvalue

problems Monte-Carlo techniques, Density functional theory, Molecular

dynamics.

Text Books :

1) Computational Physics by Jos Thijssen (Cambridge Univ Press, 1997)

2) An introduction to computational physics by Tao Pang (Cambrdige Univ

Press, 2006)

3) Computational physics : Problem Solving with Computers by Rubin H.

Landau et. al. (Wiley VCH, 2007).

4) Monte Carlo Simulations in Statistical Physics K Binder and D W

th

Heermann, 4 Ed., Springer Berlin.

PHY430 Advanced Physics Lab III (3 credits)

Experiments: 1. Doppler broadening of spectral lines, 2. Doppler- free

spectroscopy, 3. Study of spin exchange, 4. Structure determination of

small molecules / biomolecules using NMR technic

PHY 441 Physics of Information & Quantum Computation (3 credits)

Contents

Statistical Physics, Thermodynamics, and Information, Computability

and Turing Machine, Computational Complexity, Classical computers

and Moore's law, Quantum bits and Quantum Circuits, Quantum

Teleportation, Quantum Algorithms, Quantum Simulation, Decoherence,

Quantum Error Correction, Physical realization of Quantum Computers

Text Books :

1. Quantum Computation and Quantum Information, M. A. Nielsen and I. L.

Chuang, Cambridge University Press.

2. An introduction to Quantum Computing, P. Kaye, R. Laflamme and M.

Mosca, Oxford Unviserity Press.

3. Preskill's lecture notes on Quantum Information and Quantum

Computation, http://www.theory.caltech.edu/people/preskill/ ph229/

PHY443 Physics at Nanoscale (3 credits)

Contents

Overview,nanotechnology in nature ,Clusters clusters to solids, effect on

structure, ionization potential, melting etc. Electronic Structure of

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 52

Semiconductor Nanoparticles: Effective Mass Approximation, size

dependent optical properties ,Metal Nanoparticles: Surface Plasmon

Resonance, Mie theory, Stability of metal particles, metamaterials

Magnetism at Nanoscale: Magnetism in small and nanoparticles, super-

paramgnetism, introduction to spintronics, spin valve, magnetic tunnel

junction, memory elements

Synthesis of Nano materials : Physical, chemical, biological and hybrid

methods

Analysis of nanomaterials: Various Diffraction , microscopy and

spectroscopy techniques.

Text Books :

1) Optical Properties of Semiconductor Nanocrystals S. V. Gaponenko,

Cambridge Studies in Modern Optics (1997)

2) Nanoscale Materials in Chemistry Ed. By Kenneth J. Klabunde, John

Wiley & Sons Inc. (2001)

3) Nanotechnology : Principles and Practices by Sulabha K. Kulkarni,

Capital Publishing Company, N. Delhi (2009, revised reprint)

PHY445 Quantum Mechanics II (3 credits)

Prerequisite PHY 321

Contents

Perturbation theory , applications to interaction of classical fields with

atomic systems, adiabatic and sudden approximations, scattering theory,

Coupling of charges and spins to the scalar and vector potential, gauge

transformations, Identical particles and statistics, Occupation number

representation and creation and annihilation operators, oscillator coherent

states, Radiation field as a set of quantised harmonic oscillators and its

coupling to atoms. Dirac equation and its main consequences, special

topics- Bell,s inequalities, entanglement, geometric phases, super

symmetric quantum mechanics.

Text Books :

1) Quantum Mechanics (Vol I and II) C Cohen Tannoudji, B Dau and R

Laloe, John Wiley & Sons (2005).

2) Modern Quantum Mechanics J J Sakurai, Revised Edition, Addison-

Wesley Publishing Co (2009).

3) Quantum Mechanics: A Modern Development L E Ballentine, World

scientific (2006).

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 53

Semester VIII

PHY421 Atomic Molecular and Optical Physics (4 credits)

Prerequisite PHY 321

Contents

Interaction of atoms with photons, Perturbation by an oscillating electric

field, Rotating wave approximation, Transition probabilities, Induced and

spontaneous emission, Einstein coefficients, Selection rules, Lifetimes of

excited states, Line profiles of spectral lines, Interaction of monochro-

matic radiation with atoms, Concepts of Pi and Pi/2 pulses, Rabi

oscillations, Bloch sphere, Laser cooling and trapping of neutral atoms,

Magnetic trapping of Neutral atoms, Electrodynamic trapping of ions,

Quantum information processing with trapped ions, Atom interferometry,

Advanced experimental techniques in atomic and molecular physics

Text Books :

1) Quantum Optics M O Scully and M S Zubairy, Cambridge University

Press.(1997)

2) Optical coherence and Quantum Optics L Mandel and E Wolf,

Cambridge University Press(1995)

3) Laser Cooling and Trapping H Metcalf and P V der Straten,

Springer(1994)

th

4) Laser spectroscopy W Demtroeder, 4 edn Springer(2008)

nd

5) Quadrupole Ion trap Mass Spectrometry R E March and J F J Todd, 2

edn John Wiley & Sons(2005).

PHY422 Nuclear & Particle Physics (4 credits)

Prerequisite PHY 321, PHY 445

Contents

Introduction, Particles & Nuclei, Properties of nuclei- classification-

fermions & bosons-leptons-mesons-quarks-gluons-intermediate bosons-

structure of subatomic particles-scattering- form factors, - Symmetries &

Conservation laws, Additive conservation laws-Angular momentum &

isospin- invariance under partial rotation- charge independence of

hadronic forces- isospin invariance, PC & CPT- parity- intrinsic parity-

conservation and break down of parity- CC & time reversal- neutral kions-

break down of CP invariance.

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 54

Text Books :

rd

1) Subatomic Physics E M Hanley and A Garcia, 3 Ed., World Scientific

(2007)

nd

2) Introduction to Elementary Particles D Griffiths, 2 edn John Wiley &

Sons, Inc. (2008)

th

3) Introduction to High Energy Physics D H Perkins, 4 Ed., Cambridge

University Press. (2000)

PHY423 Advanced Physics Lab IV (4 credits)

Experiments: 1. Synthesis of a superconducting /ferroelectric compound

and determination of its lattice parameters, 2. Normal to superconducting

state transition studied using a 4-probe resistivity technic, 3. Structural

transition in a ferroelectric compound studied using temperature

dependant powder x-ray diffraction technic, 4. Implementation of simple

quantum algorithm.

PHY 444 Material Science (3 credits)

Contents

Historical perspectives, Types of materials, bond types and structure,

defects in solids, phase diagrams, synthesis and analysis of materials,

materials for electronics, energy, etc. Materials and waste management

(environment).

Text Books :

1) The Nature and Properties of Engineering Materials J D Jastrzebski,

John Wiley & Sons.

2) Materials Science and Engineering: An introduction - William D.

Callister, John Wiley

PHY 452 Nuclear Magnetic Resonance ( 3 credits)

Contents

Principles of NMR spectroscopy and spin-dynamics in general will be

discussed. Contents include: Spin Angular Momentum, Coupling of

Angular Momenta, Transformation under Rotations, Irreducible Tensors,

Nuclear Magnetism, and NMR Hamiltonians, Fourier Transform NMR,

Single & Multi-Spin Coherent Dynamics, Motion and Relaxation,

Characterization of Molecular Structure and Dynamics, Selected Experi-

ments in High-Resolution NMR, Powder distribution, Cross-Polari-

zation, Magic Angle Spinning, Average Hamiltonian, Spin-decoupling,

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 55

Symmetry Sequences, Materials Characterization, Selected Experiments

in SSNMR.

Text Books :

1. Elementary Theory of Angular Momentum, M. E. Rose, Dover

Publications, 1995.

2. Principles of Nuclear Magnetic Resonance in One and Two Dimensions,

R.R. Ernst, G. Bodenhausen, and A. Wokaun, Oxford University Press,

2004.

3. Spin Dynamics: Basics of Nuclear Magnetic Resonance, M. H. Levitt,

John Wiley&Sons Ltd, 2007.

4. Solid-State NMR Spectroscopy: Principles and Applications, Melinda J.

Duer, Blackwell Science, 2002.

PHY453 Dynamical Systems (3 credits)

Prerequisite PHY 311

Contents

Classification, phase flow, equilibria, stability analysis, discrete systems,

1-d and 2-d systems, bifurcation structure, higher dimensional systems,

limit cycle, quasiperiodicity, strange attractors, Lyapunov exponents,

fractals, applications.

Text Books :

1) Dynamical Systems C Robinson- CRC Press (1998)

2) Differential equations, Dyanmical systems- M W Hirsh, S Smale & R L

nd

Devaney- Academi Press- 2 edn (2004)

3) Chaos and Nonlinear Dynamics R C Hilborn, Oxford University Press.

4) Nonlinear differential equations and Dynamical systems- F Verhulst-

Springer (2006)

PHY 454 Advanced Condensed Matter Physics (3 credits)

Prerequisite PHY 410

Contents :

Second quantization, Interacting electron gas, Local magnetic moments

and the Kondo problem, Bosonization, Electron-Lattice interactions and

superconductivity, Phase transitions, Critical phenomena, Static and

dynamic renormalization groups and methods of momentum shell

calculations.

Text Books :

1) Advanced Solid state Physics Philip Phillips, Overseas Press (2008).

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 56

2) Principles of Condensed Matter Physics P M Chaikin and T C Lubensky,

Cambridge University Press (2004)

3) Statistical Mechanics of Phase transitions J M Yeomans,Oxford Univ

Press (1992)

4) Introduction to Phase Transitions and Critical Phenomena HE Stanley,

Oxford Univ Press (1971)

5) Nonlinear Dynamics Near and Far from Equilibrium JK Bhattacharjee

and S Bhattacharya, Hindustan Book Agency (2007)

Inter Disciplinary Courses

IDC101 Introduction to Computation ( 3 credits)

Contents

This course aims to provide students with an understanding of the role

computation can play in problem solving. It also aims to help students,

regardless of their computing background, to feel confident of their ability

to write programs that allow them to accomplish useful goals. We work

with the Python programming language. The course also intends to

familiarize students with the Linux operating system.

The course starts with basic computing concepts like flow control,

variable types, looping constructs. Then we cover data structures such as

arrays and associative arrays. We teach the idea of modular programming

and how it works in the context of Python. Random numbers are

introduced as they are useful in many scientific applications. File I/O is

covered. We discuss namespaces and Python's rules for scoping. We

introduce regular expressions as they are useful for text processing. Next,

we introduce them to classes and object-oriented programming (OOP).

Finally, we introduce complexity and discuss how we can measure the

time efficiency of programs. Besides lecture notes, the online Python

documentation at http://www.python.org/doc/ will be used.

Text Books

1) M. Lutz, Learning Python, 3rd Edition (O'Reilly Media, Inc., 2007),

ISBN 0596513984

IDC102- Scientific Computing ( 3 credits)

Contents

This course aims to provide students with a basic understanding in

scientific computing. A large part of the course focuses on numerical

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 57

analysis. We cover methods to solve linear systems using LU

factorization, Gaussian elimination, and Gauss-Jordan elimination. The

students also implement these algorithms using Python and numpy (a

package for numerical analysis). We also cover methods for linear least

squares analysis where methods related to data fitting are covered.

Included are normal equations method, Householder transformations,

Givens rotations and QR-factorizarion. Numerical calculation of selected

eigenvalues of a matrix using power iteration, inverse power iteration, and

power iteration with shifts. Estimation of eigenvalues and igenvectors

using Rayleigh iteration. Calculation of all eigenvalues of a matrix using

QR-iteration.

Text Books

1) M. T. Heath, Scientific Computing: An Introductory Survey (McGraw

Hill, 2002), 2nd ed.

IDC 201 Mathematical Methods ( 2 credits)

Contents

This course aims to train students in basic mathematics that an

undergraduate student of natural sciences is expected to know. The topics

included are : Linear algebra and vector calculus, Transformation laws,

gradient, divergence, curl, tensors Fourier series and transforms, Fourier

series, even and odd functions, cosine and sine Ordinary differential

equations, Basic concepts, geometric meaning, exact ODEs Laplace

transforms, Transform and its inverse, transforms of integrals, derivatives

Text books

th

1) Erwin Kreyzig ,Advanced Engineering Mathematics, Wiley, 8 edition.

2) G B Arfken and H J Weber, Mathematical methods for physicists,

th

Academic Press, 6 edition.(2007)

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010 58

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010

BS - MS Dual Degree Program - Guidebook of Curriculum - August 2010

Distribution of Courses :

The distribution of courses in the four years of course work is given below. The course code for

courses from each stream will have three letters indicating the discipline followed by three digits.

Integrated BS - MS Program - Guidebook of Curriculum - August 2010

T- Theory course, L- Lab course, P- Project course, C- Credits

Semester BIOLOGY CHEMISTRY PHYSICS MATHE - IDC HSS

MATICS

T L T L T L T C-

C-3 C-2 C-3 C-2 C-3 C-2 C-3 2/3 1/2

I 101 121 101 121 101 121 101 101 101

II 102 122 102 122 102 - 102 102 102

III 201 221 201 - 201 221 201 201 201

IV 202 - 202 221 202 222 202 202 202

C-4 C-3 C-4 C-3 C-4 C-3 C-4 C-3

V 310 301-P 320 331 310 301-P 310 301-P

311 332 311 332 311 330-L 311 469

312 334 312 340-L 312 333 312

322 335 337 313

351

VI 320 302-P 310 334 321 302-P 320 302-P

321 351 321 351 322 334 322 341

412 352 322 360-L 323-L 352 324 363

353 353

354 355

VII 410 401-P 410 430-L 410 401-P 410 401-P

411 431 411 431 413 430-L 413 344

417 433 412 432 414 441 414 443

420 452 436 443 491

445

VIII 421 402-P 420 433 421 402-P 420 402-P

422 451 421 435 422 444 421 448

423 454 422 423-L 452 422 455

490 423 453 470

491 454 490

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