**AMS 500, Responsible Conduct of Research and Scholarship (RCRS)**

This course is designed to introduce students to the major issues in the ethics of science and research. Using a combination of readings - written and web-based - videos, and case discussion, students will investigate the moral values intrinsic to science and the professional and social values with which scientists must comply. Each class will begin with an introductory lecture or video followed by discipline-based, small group discussions with the participation of an AMS faculty member.

Spring/Fall, 0 credits, S/U grading

AMS 500 Webpage

**AMS 501 Differential Equations and Boundary Value Problems I **

Examples of initial and boundary value problems in which differential equations arise. Existence and uniqueness of solutions, systems of linear differential equations, and the fundamental solution matrix. Power series solutions, Sturm-Louiville theory, eigenfunction expansion, Green's functions.

Spring, 3 credits, ABCF grading

AMS 501 Webpage **AMS 502 Differential Equations and Boundary Value Problems II **

Analytic solution techniques for, and properties of solutions of, partial differential equations, with concentration on second order PDEs. Techniques covered include: method of characteristics, separation of variables, eigenfunction expansions, spherical means, GreenÕs functions and fundamental solutions, and Fourier transforms. Solution properties include: energy conservation, dispersion, dissipation, existence and uniqueness, maximum and mean value principles.

Prerequisite: AMS 501

Fall, 3 credits, ABCF grading

AMS 502 Webpage **AMS 503 Applications of Complex Analysis **

A study of those concepts and techniques in complex function theory that are of interest for their applications. Pertinent material is selected from the following topics: harmonic functions, calculus of residues, conformal mapping, and the argument principle. Application is made to problems in heat conduction, potential theory, fluid dynamics, and feedback systems.

Spring, 3 credits, ABCF grading

AMS 503 Webpage **AMS 504 Foundations of Applied Mathematics **

An introductory course for the purpose of developing certain concepts and techniques that are fundamental in modern approaches to the solution of applied problems. An appropriate selection of topics is based on the concepts of metric spaces, compactness, sequences and convergence, continuity, differentiation and integration, function sequences, contraction mapping theorem. Strong emphasis on proofs.

Fall, 3 credits, ABCF grading

AMS 504 Webpage **AMS 505 Applied Linear Algebra **

Review of matrix operations. Elementary matrices and reduction of general matrices by elementary operations, canonical forms, and inverses. Applications to physical problems. Coscheduled as AMS 505 or HPH 695.

Fall, 3 credits, ABCF grading

AMS 505 Webpage **AMS 506 Finite Structures **

Problem solving in combinatorial analysis and graph theory using generating functions, recurrence relations, PolyaÕs enumeration formula, graph coloring, and network flows.

3 credits, ABCF grading

AMS 506 Webpage **AMS 507 Introduction to Probability **

The topics include sample spaces, axioms of probability, conditional probability and independence, discrete and continuous random variables, jointly distributed random variables, characteristics of random variables, law of large numbers and central limit theorem, Markov chains. Note: Crosslisted with HPH 696.

Fall, 3 credits, ABCF grading

AMS 507 Webpage **AMS 510 Analytical Methods for Applied Mathematics and Statistics **

Review of techniques of multivariate calculus, convergence and limits, matrix analysis, vector space basics, and Lagrange multipliers.

Fall, 3 credits, ABCF grading

AMS 510 Webpage

**AMS 511, Foundation of Quantitative Finance **

Introduction to capital markets, securities pricing, and modern portfolio theory, including the organization and operation of securities market, the Efficient Market Hypothesis and its implications, the Capital Asset Pricing Model, the Arbitrage Pricing Theory, and more general factor models. Common stocks and their valuation, statistical analysis, and portfolio selection in a single-period, mean-variance context will be explored along with its solution as a quadratic program. Fixed income securities and their valuation, statistical analysis, and portfolio selection. Discussion of the development and use of financial derivatives. Introduction to risk neutral pricing, stochastic calculus, and the Black-Scholes Formula. Whenever practical, examples will use real market data. Numerical exercises and projects in a high-level programming environment will also be assigned.

Prerequisites: AMS 505 or AMS 510

3 credits, ABCF grading

AMS 511 Webpage **AMS 512 Capital Markets and Portfolio Theory **

Development of capital markets and portfolio theory in both continuous time and multi-period settings. Utility theory and its application to the determination of optimal consumption and investment policies. Asymptotic growth under conditions of uncertainty. Applications to problems in strategic asset allocation over finite horizons and to problems in public finance. Whenever practical, examples will use real market data. Numerical exercises and projects in a high-level programming environment will also be assigned.

Prerequisite: AMS 511

3 credits, ABCF grading

AMS 512 Webpage **AMS 513 Financial Derivatives and Stochastic Calculus **

Foundations of stochastic modeling for finance applications, starting with general probability theory leading up to basic results in pricing exotic and American derivatives. We will cover filtrations and generalized conditional expectation, Girsanov theorem and the Radon-Nikodym process, martingales, Brownian motion, Ito integration and processes, Black-Scholes formula, risk neutral pricing, Feynman-Kac theorem, exotic options such as barrier and lookback, and the perpetual American put. If time permits we will discuss term structure modeling, volatility estimation, and mortgage backed securities.

Prerequisite: AMS 511

3 credits, ABCF grading

AMS 513 Webpage **AMS 514 Computational Finance **

Review of foundations: stochastic calculus, martingales, pricing, and arbitrage. Basic principles of Monte Carlo and the efficiency and effectiveness of simulation estimators. Generation of pseudo- and quasi-random numbers with sampling methods and distributions. Variance reduction techniques such as control variates, antithetic variates, stratified and Latin hypercube sampling, and importance sampling. Discretization methods including first and second order methods, trees, jumps, and barrier crossings. Applications in pricing American options, interest rate sensitive derivatives, mortgage-backed securities and risk management. Whenever practical, examples will use real market data. Extensive numerical exercises and projects in a general programming environment will also be assigned.

Prerequisite: AMS 512 and AMS 513

3 credits, ABCF grading

AMS 514 Webpage **AMS 515 Case Studies in Computational Finance **

Actual applications of Quantitative Finance to problems of risk assessment, product design, portfolio management, and securities pricing will be covered. Particular attention will be paid to data collection and analysis, the design and implementation of software, and, most importantly, to differences that occur between Òtheory and practiceÓ in model application, and to the development of practical strategies for handling cases in which Òmodel failureÓ makes the naive use of quantitative techniques dangerous. Extensive use of guest lecturers drawn from the industry will be made.

Prerequisite: AMS 512 and AMS 513

3 credits, ABCF grading

AMS 515 Webpage **AMS 516, Statistical Methods in Finance**

The course introduces statistical methodologies in quantitative finance. Financial applications and statistical methodologies are intertwined in all lectures. The course will cover regression analysis and applications to the Capital Asset Pricing Model and multifactor pricing models, principal components and multivariate analysis, statistical methods for financial time series; value at risk, smoothing techniques and estimation of yield curves, and estimation and modeling of volatilities.

3 credits, ABCF grading

AMS 516 Webpage

**AMS 517, Quantitative Risk Management**

The course will cover structural and reduced-form approach to pricing credit default, Markovian models (or rating-based) pricing methods, statistical inference of relative risks, counting process, correlated (or dependent) default times, copula methods and pricing models for CDOs.

3 credits, ABCF grading

AMS 517 Webpage

**AMS 518, Advanced Stochastic Models, Risk Assessment, and Portfolio Optimization**

The course provides a thorough treatment of advance risk measurement and portfolio optimization, extending the traditional approaches to these topics by combining distributional models with risk or performance measures into one framework. It focuses on, among others, the fundamentals of probability metrics and optimization, new approaches to portfolio optimization and a varierty of essential risk measures. Numerical exercises and projects in a high-level programming environment will be assigned.

Offered Fall semester

Prerequisite: AMS 512 or instructor consent

3 credits, ABCF grading

AMS 518 Webpage

**AMS 519, Internship in Quantitative Finance**

Supervised internship in financial institution. Students will typically work at a trading desk, in an asset management group, or in a risk management group. Students will be supervised by a faculty member and a manager at their internship site. Written and oral reports will be made to both supervisors.

Offered every semester, 3-6 credits, S/U Grading

AMS 519 Webpage

**AMS 522, Bayesian Methods in Finance**

The course explores in depth the fundamentals of the Bayesian methodology and the use of the Bayesian theory in portfolio and risk management. It focuses on, among other topics incorporating the prior views of analysts and investors into the asset allocation process, estimating and predicting volatility, improving risk forecasts, and combining the conclusions of different models. Numerical exercises and projects in a high-level programming environment will be assigned.

SPRING 3 credits, ABCF grading

Prerequisite: AMS 512 or instructor consent

AMS 522 Webpage

**AMS 523, Mathematics of High Frequency Finance**

The course explores Elements of real and complex linear spaces. Fourier series and transforms, the Laplace transform and z-transform. Elements of complex analysis including Cauchy theory, residue calculus, conformal mapping and Möbius transformations. Introduction to convex sets and analysis in finite dimensions, the Legendre transform and duality. Examples are given in terms of applications to high frequency finance.

FALL 3 credits, ABCF grading

AMS 523 Webpage

**AMS 526 Numerical Analysis I **

Direct and indirect methods for solving simultaneous linear equations and matrix inversion, conditioning, and round-off errors. Computation of eigenvalues and eigenvectors.

Co-requisite: AMS 505

Fall, 3 credits, ABCF grading

AMS 526 Webpage **AMS 527 Numerical Analysis II **

Numerical methods based upon functional approximation: polynomial interpolation and approximation; and numerical differentiation and integration. Solution methods for ordinary differential equations. AMS 527 may be taken whether or not the student has completed AMS 526.

Spring, 3 credits, ABCF grading

AMS 527 Webpage **AMS 528 Numerical Analysis III **

An introduction to scientific computation, this course considers the basic numerical techniques designed to solve problems of physical and engineering interest. Finite difference methods are covered for the three major classes of partial differential equations: parabolic, elliptic, and hyperbolic. Practical implementation will be discussed. The student is also introduced to the important packages of scientific software algorithms. AMS 528 may be taken whether or not the student has completed AMS 526 or AMS 527.

Spring, 3 credits, ABCF grading

AMS 528 Webpage **AMS 530 Principles in Parallel Computing **

This course is designed for both academic and industrial scientists interested in parallel computing and its applications to large-scale scientific and engineering problems. It focuses on the three main issues in parallel computing: analysis of parallel hardware and software systems, design and implementation of parallel algorithms, and applications of parallel computing to selected problems in physical science and engineering. The course emphasizes hands-on practice and understanding of algorithmic concepts of parallel computing.

Prerequisite: A course in basic computer science such as operating systems or architectures or some programming experience

Spring, 3 credits, ABCF grading

AMS 530 Webpage

**AMS 531 Laboratory Rotations in Computational Biology**

This is a *two-semester* course in which first year Ph.D. students spend at least 8 weeks in each of three different laboratories actively participating in the research of participating Computational Biology faculty. At the end of each rotation, students give a presentation of their lab activates and accomplishments. The primary goal of rotations is to help students choose a research advisor and to help faculty members choose students. Students register for AMS 531 in both the Fall and Spring semesters of the first year.

Offered in Fall and Spring semesters; 0-3 credits, S/U grading

AMS 531 Webpage

**AMS 532 Laboratory Rotations and Journal Club**

This is a two semester course in which students spend at least 8 weeks in each of three different laboratories actively participating in the research of participating Computational Biology faculty. In addition, students will attend and actively participate in research discussions at weekly Journal Club meetings on topics from the current literature using the skills and knowledge acquired during the rotations.

0 credits, ABCF grading

AMS 532 Webpage **AMS 533 Numerical Methods and Algorithms in Computational Biology**

This class will survey many of the key techniques used in diverse aspects of computational biology. We will focus on how to successfully formulate a statement of the problem to be solved, and how that formulation can guide in selecting the most suitable computational approach. A set of problems from a diverse range of problems in biology will be used as examples. *Note: Informatic methods for genomic analysis (such as data mining and analysis of nucleic acid and protein sequences) will not be covered. These topics are covered thoroughly in CSE 549.*

3 credits, ABCF grading

AMS 533 Webpage

**AMS 534 Introduction to Systems Biology**

A detailed introduction to essential concepts and computational skills for doing research in Systems Biology. The class will be centered upon two key programming languages: Matlab for modeling applications and the R language for statistical analysis and sequence manipulation. Examples will come from a broad range of biological applications ranging from theoretical population genetics, metabolic and gene network dynamics to analysis of high-throughput data. No prior knowledge of biology or mathematical/computational techniques is required. *Note: Crosslisted with BGE 534.*

3 credits, ABCF grading

AMS 534 Webpage

**AMS 535 Introduction to Computational Structural Biology and Drug Design**

This course will provide an introduction to Computational Structural Biology with application to Drug Design. Methods and applications that use computation to model biological systems involved in human disease will be emphasized. The course aims to foster collaborative learning and will consist of presentations by the instructor, guest lecturers, and by course participants with the goal of summarizing key methods, topics, and papers relevant to Computational Structural Biology.

0-3 credits, ABCF grading, may be repeated for credit

AMS 535 Webpage **AMS 536 Molecular Modeling of Biological Molecules **

This course is designed for students who wish to gain hands-on experience modeling biological molecules at the atomic level. In conjunction with the individual interests, Molecular Mechanics, Molecular Dynamics, Monte Carlo, Docking (virtual screening), or Quantum Mechanics software packages can be used to study relevant biological systems(s). Projects will include setup, execution, and analysis. Course participants will give literature presentations relevant to the simulations being performed and a final project report will be required. Familiarity with UNIX (Linux) is desirable.

Prerequisite: AMS 535 or permission of instructor

0-3 credits, ABCF grading, may be repeated for credit

AMS 536 Webpage

**AMS 537 Biological Dynamics and Networks**

This course will provide a solid foundation in key theoretical concepts for the study of dynamics in biological systems and networks at different scales ranging from the molecular level to metabolic and gene regulatory networks. Topics of this course include but are not limited to: Physical kinetics; Diffusion/Smoluchowskii; Random flights; Waiting times; Poisson; Brownian ratchets; Chemical kinetics; Transition states; Stability, bifurcations, pattern development; Noise in cells: intrinsic and Extrinsic; Feedback; Biological Osciillators; Recurrence, period doubling, chaos; Networks; Topologies; Degree distribution, betweenness; Models of nets: Erdos-Renyi, scale-free, social, Watts-Strogatz, agents; Robustness, highly-optimized tolerance, bowties, epidemics; Biological networks: Protein-protein nets, regulatory and metabolic nets; Known biological circuits and their behaviors; How networks evolve: Preferential attachment, rewiring; Power laws; Fluxed through networks; Information and communication, entropy; Metabolic flux analysis; Artificial and Natural selection for traits; Darwinian evolution; Population dynamics.

Offered in the Spring semester, 3 credits, ABCF grading*Crosslisted with PHY 559 and CHE 559*

AMS 537 Webpage

**AMS 539 Introduction to Physical and Quantitative Biology**

This course is a seminar series organized by the Laufer Center for Physical and Quantitative Biology and is aimed at any incoming graduate students who might be interested in doing research in computational, mathematical or physical biology. Each seminar will be given by a different faculty member about their research and will span a range of topics including computational cell biology and evolutionary models.*0-1 credits, S/U grading*

AMS 539 Webpage

**AMS 540 Linear Programming **

Formulation of linear programming problems and solutions by simplex method. Duality, sensitivity analysis, dual simplex algorithm, decomposition. Applications to the transportation problem, two-person games, assignment problem, and introduction to integer and nonlinear programming. This course is offered as both MBA 540 and AMS 540.

Prerequisite: A course in linear algebra

3 credits, ABCF grading

AMS 540 Webpage **AMS 542 Analysis of Algorithms **

Techniques for designing efficient algorithms, including choice of data structures, recursion, branch and bound, divide and conquer, and dynamic programming. Complexity analysis of searching, sorting, matrix multiplication, and graph algorithms. Standard NP-complete problems and polynomial transformation techniques. This course is offered as both AMS 542 and CSE 548.

Spring, 3 credits, ABCF grading

AMS 542 Webpage **AMS 544 Discrete and Nonlinear Optimization **

Theoretical and computational properties of discrete and nonlinear optimization problems: integer programming, including cutting plane and branch and bound algorithms, necessary and sufficient conditions for optimality of nonlinear programs, and performance of selected nonlinear programming algorithms. This course is offered as both MBA 544 and AMS 544.

Prerequisite: AMS 540 or MBA 540

3 credits, ABCF grading

AMS 544 Webpage **AMS 545 Computational Geometry **

Study of the fundamental algorithmic problems associated with geometric computations, including convex hulls, Voronoi diagrams, triangulation, intersection, range queries, visibility, arrangements, and motion planning for robotics. Algorithmic methods include plane sweep, incremental insertion, randomization, divide-and-conquer, etc. This course is offered as both AMS 545 and CSE 555.

Spring, 3 credits, ABCF grading

AMS 545 Webpage **AMS 546 Network Flows **

Theory of flows in capacity-constrained networks. Topics include maximum flow, feasibility criteria, scheduling problems, matching and covering problems, minimum-length paths, minimum-cost flows, and associated combinatorial problems. This course is offered as both MBA 546 and AMS 546.

Spring, 3 credits, ABCF grading

AMS 546 Webpage **AMS 547 Discrete Mathematics **

This course introduces such mathematical tools as summations, number theory, binomial coefficients, generating functions, recurrence relations, discrete probability, asymptotics, combinatorics, and graph theory for use in algorithmic and combinatorial analysis. This course is offered as both CSE 547 and AMS 547.

Spring, 3 credits, ABCF grading

AMS 547 Webpage **AMS 550 Operations Research: Stochastic Models **

Includes Poisson processes, renewal theory, discrete-time and continuous-time Markov processes, Brownian motion, applications to queues, statistics, and other problems of engineering and social sciences. This course is offered as both MBA 550 and AMS 550.

Prerequisite: AMS 507 or equivalent

Spring, 3 credits, ABCF grading

AMS 550 Webpage **AMS 552 Game Theory I **

Elements of cooperative and noncooperative games. Matrix games, pure and mixed strategies, and equilibria. Solution concepts such as core, stable sets, and bargaining sets. Voting games, and the Shapley and Banzhaff power indices. This course is offered as both ECO 604 and AMS 552.

Prerequisite: Admission to graduate AMS program or permission of instructor

0-3 credits, ABCF grading

AMS 552 Webpage **AMS 553 Simulation and Modeling **

A comprehensive course in formulation, implementation, and application of simulation models. Topics include data structures, simulation languages, statistical analysis, pseudorandom number generation, and design of simulation experiments. Students apply simulation modeling methods to problems of their own design. This course is offered as CSE 529, AMS 553, and MBA 553.

Prerequisite: CSE 214 or equivalent; AMS 310 or AMS 507 or equivalent; or permission of instructor

Spring, 3 credits, ABCF grading

AMS 553 Webpage **AMS 554 Queuing Theory **

Introduction to the mathematical aspects of congestion. Birth and death processes. Queues with service priorities and bulk-service queues. Analysis of transient- and steady-state behavior. Estimation of parameters. Applications to engineering, economic, and other systems. This course is offered as both MBA 554 and AMS 554.

3 credits, ABCF grading

AMS 554 Webpage **AMS 555 Game Theory II **

Refinements of strategic equilibrium, games with incomplete information, repeated games with and without complete information, and stochastic games. The Shapley value of games with many players, and NTU-values. This course is offered as both ECO 605 and AMS 555.

Spring, 0-3 credits, ABCF grading

AMS 555 Webpage **AMS 556 Dynamic Programming **

Stochastic and deterministic multistage optimization problems. Stochastic path problems. Principle of optimality. Recursive and functional equations. Method of successive approximations and policy iteration. Applications to finance, economics, inventory control, maintenance, inspection, and replacement problems. This course is offered as both MBA 556 and AMS 556.

Prerequisite: MBA/AMS 550 or MBA/AMS 558

3 credits, ABCF grading

AMS 556 Webpage

**AMS 561 Introduction to Computational Science**

This course provides foundational knowledge and skills necessary for the successful application of computation for either simulation or data analysis in graduate research across the physical, life, and social sciences, and engineering. Assuming zero prior programming experience, students will become familiar with software development using the popular Python language and the iPython notebook, will be introduced to the R and Matlab environments, and through multiple case studies and projects will be exposed to key tools and concepts in both numerical and data-centric computing including some of the software and methods underlying the “big-data” revolution. * This course is owned and controlled by the Institute of Advanced Computational Science (IACS).Prerequisite*: *Student must be matriculated in the IACS Advanced Graduate Certificate in Data & Computational Science & Engineering. Requires departmental consent.*

3 credits, ABCF grading

Offered in the Spring Semester

AMS 561 Webpage

**AMS 562 Introduction to Scientific Programming in C++**

This course provides students with foundational skills and knowledge in practical scientific programming relevant for scientists and engineers. The primary language is C++ since it is a widely-used object-oriented language, includes C as a subset, and is a powerful tool for writing robust, complex, high-performance software. Elements of Python, Bash, and other languages will be introduced to complement the capabilities of C++, and essential tools for software development and engineering will be employed throughout the course (e.g., makefiles, version control, online code repositories, debugging, etc.) *This course is controlled and owned by the Institute for Advanced Computational Science (IACS).*

3 credits, ABCF grading

Offered in the Fall Semester

AMS 562 Webpage

**AMS 565 Wave Propagation **

Theory of propagation of vector and scalar waves in bounded and unbounded regions. Development of methods of geometrical optics. Propagation in homogeneous and anisotropic media.

Fall, 3 credits, ABCF grading

AMS 565 Webpage **AMS 566 Compressible Fluid Dynamics **

Physical, mathematical, and computational description in compressible fluid flows. Integral and differential forms of the conservation equations, one-dimensional flow, shocks and expansion waves in two and three dimensions, quasi-one-dimensional flow, transient flow, numerical methods for steady supersonic flow, numerical methods for transient flow.

Spring, 3 credits, ABCF grading

AMS 566 Webpage **AMS 569 Probability Theory I **

Probability spaces and sigma-algebras. Random variables as measurable mappings. Borel-Cantelli lemmas. Expectation using simple functions. Monotone and dominated convergence theorems. Inequalities. Stochastic convergence. Characteristic functions. Laws of large numbers and the central limit theorem. This course is offered as both AMS 569 and MBA 569.

Prerequisite: AMS 504 or equivalent

AMS 569 Webpage

3 credits, ABCF grading**AMS 570 Introduction to Mathematical Statistics **

Probability and distributions; multivariate distributions; distributions of functions of random variables; sampling distributions; limiting distributions; point estimation; confidence intervals; sufficient statistics; Bayesian estimation; maximum likelihood estimation; statistical tests.

Prerequisite: AMS 507

Spring, 3 credits, ABCF grading

AMS 570 Webpage **AMS 571 Mathematical Statistics **

Sampling distribution; convergence concepts; classes of statistical models; sufficient statistics; likelihood principle; point estimation; Bayes estimators; consistency; Neyman-Pearson Lemma; UMP tests; UMPU tests; Likelihood ratio tests; large sample theory.

Prerequisite: AMS 570 is preferred but not required

Fall, 3 credits, ABCF grading

AMS 571 Webpage **AMS 572 Data Analysis I **

Introduction to basic statistical procedures. Survey of elementary statistical procedures such as the t-test and chi-square test. Procedures to verify that assumptions are satisfied. Extensions of simple procedures to more complex situations and introduction to one-way analysis of variance. Basic exploratory data analysis procedures (stem and leaf plots, straightening regression lines, and techniques to establish equal variance). Coscheduled as AMS 572 or HPH 698.

Fall, 3 credits, ABCF grading

AMS 572 Webpage **AMS 573 Design and Analysis of Categorical Data **

Measuring the strength of association between pairs of categorical variables. Methods for evaluating classification procedures and inter-rater agreement. Analysis of the associations among three or more categorical variables using log linear models. Logistic regression.

Spring, 3 credits, ABCF grading

AMS 573 Webpage **AMS 575 Internship in Statistical Consulting **

Directed quantitative research problem in conjunction with currently existing research programs outside the department. Students specializing in a particular area work on a problem from that area; others work on problems related to their interests, if possible. Efficient and effective use of computers. Each student gives at least one informal lecture to his or her colleagues on a research problem and its statistical aspects.

Prerequisite: Permission of instructor

Fall and Spring, 3-4 credits, ABCF grading

AMS 575 Webpage **AMS 577 Multivariate Analysis **

The multivariate distribution. Estimation of the mean vector and covariance matrix of the multivariate normal. Discriminant analysis. Canonical correlation. Principal components. Factor analysis. Cluster analysis.

Prerequisites: AMS 572 and AMS 578

3 credits, ABCF grading

AMS 577 Webpage **AMS 578 Regression Theory **

Classical least-squares theory for regression including the Gauss-Markov theorem and classical normal statistical theory. An introduction to stepwise regression, procedures, and exploratory data analysis techniques. Analysis of variance problems as a subject of regression. Brief discussions of robustness of estimation and robustness of design.

Prerequisite: AMS 572 or equivalent

Spring, 3 credits, ABCF grading

AMS 578 Webpage **AMS 582 Design of Experiments **

Discussion of the accuracy of experiments, partitioning sums of squares, randomized designs, factorial experiments, Latin squares, confounding and fractional replication, response surface experiments, and incomplete block designs. Coscheduled as AMS 582 or HPH 699.

Prerequisite: AMS 572 or equivalent

Fall, 3 credits, ABCF grading

AMS 582 Webpage **AMS 586 Time Series **

Analysis in the frequency domain. Periodograms, approximate tests, relation to regression theory. Pre-whitening and digital fibers. Common data windows. Fast Fourier transforms. Complex demodulation, GibbsÕ phenomenon issues. Time-domain analysis.

Prerequisites: AMS 507 and AMS 570

Fall, 3 credits, ABCF grading

AMS 586 Webpage **AMS 587 Nonparametric Statistics **

This course covers the applied nonparametric statistical procedures: one-sample Wilcoxon tests, two-sample Wilcoxon tests, runs test, Kruskal-Wallis test, KendallÕs tau, SpearmanÕs rho, Hodges-Lehman estimation, Friedman analysis of variance on ranks. The course gives the theoretical underpinnings to these procedures, showing how existing techniques may be extended and new techniques developed. An excursion into the new problems of multivariate nonparametric inference is made.

3 credits, ABCF grading

AMS 587 Webpage **AMS 588 Failure and Survival Data Analysis**

Statistical techniques for planning and analyzing medical studies. Planning and conducting clinical trials and retrospective and prospective epidemiological studies. Analysis of survival times including singly censored and doubly censored data. Quantitative and quantal bioassays, two-stage assays, routine bioassays. Quality control for medical studies.

3 credits, ABCF grading

AMS 588 Webpage **AMS 589 Quantitative Genetics **

Definition of relevant terminology. Statistical and genetic models for inheritance of quantitative traits. Estimation of effects of selection, dominance polygenes, epistatis, and environment. Linkage studies and threshold characteristics.

3 credits, ABCF grading

AMS 589 Webpage **AMS 591 Topics for M.S. Students **

Various topics of current interest in applied mathematics will be offered if sufficient interest is shown. Several topics may be taught concurrently in different sections.

Prerequisite: Permission of instructor

3 credits, ABCF grading, may be repeated for credit

AMS 591 Webpage **AMS 593 Mathematical Theory of Interest and Portfolio Pricing **

Calculation of simple and compound interest poses elementary arithmetic or algebraic problems. Variable interest rates (including indexing), inflation, changes in the exchange rates of foreign currency, and changes in the laws, such as income tax, create investment risks. The course is intended to develop problem-solving skills and adopts both deterministic and stochastic approaches. The perspectives of the consumer and the investor are taken into account. The material helps students prepare for the actuarial examinations. Topics are selected from the following: simple and compound interest, fixed-rate loans and mortgages, annuities and capital budgeting of pension plans, variable interest rates, bonds, prepayment and default scenarios, and currency baskets.

Fall, 3 credits, ABCF grading

AMS 593 Webpage **AMS 595 Fundamentals of Computing **

Introduction to UNIX operating system, C language, graphics, and parallel supercomputing.

Fall, 1 credit, ABCF grading

AMS 595 Webpage **AMS 596 Fundamentals of Large-Scale Computing **

Overview of the design and maintenance of large scale computer projects in applied mathematics, including basic programming techniques for massively parallel supercomputers.

1 credit, ABCF grading

AMS 596 Webpage **AMS 597 Statistical Computing **

Introduction to statistical computing using SAS and S plus.

Spring, 3 credits, ABCF grading

AMS 597 Webpage

**AMS 598 Big Data Analysis***Prerequisites:* AMS 572, AMS 573 and AMS 578

Introduction to the application of the supercomputing for statistical data analyses, particularly on big data.

Fall, 3 credits, ABCF grading

AMS 598 Webpage

**AMS 599 Research **

Fall, spring, and summer, 1-12 credits, S/U grading, may be repeated for credit

AMS 599 Webpage

**AMS 600 Socially Responsible Investing**

Introduction to a scope of investments which are socially responsible because of the nature of the business the company conducts.

Fall, 3 credits, ABCF grading

AMS 600 Webpage

**AMS 601 Risk Management and Business Risk Control in BRIC Countries**

Introduction to challenges and opportunities in investing the BRIC countries, Brazil, Russia, India and China, with emphasis in the risk assessment, control and management.

Spring, 3 credits, ABCF grading

AMS 601 Webpage

**AMS 603 Computational Methods for Quantitative Finance**

Students will work on projects in quantitative finance.

1-3 credits; ABCDF grading; Permission of the instructor

AMS 603 Webpage

**AMS 676 Internship in Applied Mathematics**

Directed research and/or practical experience in industry, financial and consulting firms, and research institutions. Students are required to have a department faculty adviser who coordinates and supervises the internship. Submission of the final report is required.

Grading: S/U; 0-9 credits

AMS 676 Webpage

**AMS 683 Biological Physics and Biophysical Chemistry: Theoretical Perspectives **

This course will survey a selected number of topics in biological physics and biophysical chemistry. The emphasis is on the understanding of physical organization principles and fundamental mechanisms involved in the biological process. The potential topics include: Protein Folding, Protein Dynamics, Biomolecular Interactions and Recognition, Electron and Proton Transfer, Motors, Membranes, Single Molecules and Single Cells, Cellular Networks, Development and Differentiation, Brains and Neural Systems, Evolution. There will be no homework or exams. The grades will be based on the performance of the term projects. Crosslisted with PHY 680 and CHE 683.

0-3 credits, ABCF grading

AMS 683 Webpage **AMS 691 Topics in AMS**

Varying topics selected from the list below if sufficient interest is shown. Several topics may be taught concurrently in different sections: Advanced Operational Methods in Applied Mathematics, Approximate Methods in Boundary Value Problems in Applied Mathematics, Control Theory and Optimization Foundations of Passive Systems Theory, Game Theory, Mixed Boundary Value Problems in Elasticity, Partial Differential Equations, Quantitative Genetics, Stochastic Modeling.

3 credits, ABCF grading, may be repeated for credit

AMS 691 Webpage **AMS 698 Practicum in Teaching **

1-3 credits, may be repeated for credit

AMS 698 Webpage **AMS 699 Dissertation Research on Campus **

Prerequisite: Must be advanced to candidacy (G5); major portion of research must take place on SBU campus, at Cold Spring Harbor, or at Brookhaven National Lab

Fall, spring, and summer, 1-9 credits, S/U grading, may be repeated for credit

AMS 699 Webpage **AMS 700 Dissertation Research off Campus Domestic **

Prerequisite: Must be advanced to candidacy (G5); major portion of research will take place off-campus, but in the U.S. and/or U.S. provinces (Brookhaven National Lab and Cold Spring Harbor Lab are considered on campus); all international students must enroll in one of the graduate student insurance plans and should be advised by an International Advisor

Fall, spring, summer, 1-9 credits, S/U grading, may be repeated for credit

AMS 700 Webpage **AMS 701 Dissertation Research off Campus International **

Prerequisite: Must be advanced to candidacy (G5); major portion of research will take place outside of the U.S. and/or U.S. provinces; domestic students have the option of the health plan and may also enroll in MEDEX; international students who are in their home country are not covered by mandatory health plan and must contact the Insurance Office for the insurance charge to be removed; international students who are not in their home country are charged for the mandatory health insurance (if they are to be covered by another insurance plan, they must file a waiver by the second week of classes; the charge will only be removed if the other plan is deemed comparable); all international students must receive clearance from an International Advisor.

Fall, spring, summer, 1-9 credits, S/U grading, may be repeated for credit

AMS 701 Webpage **AMS 800 Summer Research **

May be repeated for credit

AMS 800 Webpage