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# Course Descriptions

Biomathematics

## Biomathematics - Course Descriptions

BMTH 310 Mathematical Biology 4R-0L-4C F
Prerequisites: MA 211 Differential Equations 4R-0L-4C F,W,S, and MA 212 Matrix Algebra & Systems of Differential Equations 4R-0L-4C F,W,S
Corequisites: There are no corequisites for this course.

This course emphasizes the application of differential equations and probability theory to modeling and analyzing dynamic biological systems. Mathematical topics include ordinary and partial differential equations, discrete dynamical systems, bifurcations, limit cycles, chaos, and probabilistic and stochastic modeling. Biological applications may include, but are not limited to, biochemistry, molecular and cellular biology, epidemiology, neurophysiology, ecology, sociology, and pattern formation.

BMTH 311 Systems Biology 4R-0L-4C W
Prerequisites: MA 211 Differential Equations 4R-0L-4C F,W,S, and MA 212 Matrix Algebra & Systems of Differential Equations 4R-0L-4C F,W,S* *MA 212 may be taken concurrently with instructor permission.
Corequisites: There are no corequisites for this course.

The study of how to combine detailed biological information to build models of entire systems. Nearly any biological scale can be considered. For example, at the biochemistry level the course will consider topics such as gene regulatory networks, protein interaction networks, and metabolisms. Moving toward larger scales, systems biology can be used to study the growth of cancerous tumors, and on an even larger scale, the mating and social structure of populations. The course's focus is on how to use relational information to perform model based inquiries of an entire system.

BMTH 312 Bioinformatics 4R-0L-4C S (odd years)
Prerequisites: CSSE 120 Introduction to Software Development 3R-3L-4C F,W,S, and MA 381 Introduction to Probability with Applications to Statistics 4R-0L-4C F,W,S
Corequisites: There are no corequisites for this course.

This course will study how to combine mathematical, statistical, probabilistic, and computational methods to analyze biological data. Example topics are sequence alignment, locating genes, structural alignment, microarray analysis, and drug design. The course emphasizes how to search and compare biological datasets to make scientific inferences.

BMTH 413 Computational Biology 4R-0L-4C S (even years)
Prerequisites: MA 332 Introduction to Computational Science 4R-0L-4C F,W, and BMTH 310 Mathematical Biology 4R-0L-4C F or BMTH 311 Systems Biology 4R-0L-4C W or BMTH 312 Bioinformatics 4R-0L-4C S (odd years)
Corequisites: There are no corequisites for this course.

The study of how to build and validate computational models to conduct biological studies. Ex-emplary topics include molecular dynamics, haplotyping, phylogenetics, neuroscience, and population dynamics. The course will consider the implementation and analysis of algorithms that are specifically germane to the life sciences.

BMTH 490 Topics in Biomathematics Variable Credit
Prerequisites: There are no prerequisites for this course.
Corequisites: There are no corequisites for this course.

Varies

BMTH 496 Capstone Experience I 2C F
Prerequisites: Senior standing or permission of instructor.
Corequisites: There are no corequisites for this course.

Independent study in a thesis project to be directed by a faculty member. The project and faculty adviser are to be identified prior to starting BMTH 496, and a plan of study is to be agreed upon by the student and adviser prior to the initiation of the thesis sequence. The thesis will culminate in a written report and a public presentation/defense that will be evaluated by a thesis committee consisting of at least the adviser and two other members of the faculty. BMTH 496/497/498 must be taken in consecutive quarters.

BMTH 497 Capstone Experience II 4C W
Prerequisites: BMTH 496 Capstone Experience I 2C F
Corequisites: There are no corequisites for this course.

Independent study in a thesis project to be directed by a faculty member. The project and faculty adviser are to be identified prior to starting BMTH 496, and a plan of study is to be agreed upon by the student and adviser prior to the initiation of the thesis sequence. The thesis will culminate in a written report and a public presentation/defense that will be evaluated by a thesis committee consisting of at least the adviser and two other members of the faculty. BMTH 496/497/498 must be taken in consecutive quarters.

BMTH 498 Capstone Experience III 2C S
Prerequisites: BMTH 497 Capstone Experience II 4C W
Corequisites: There are no corequisites for this course.

Independent study in a thesis project to be directed by a faculty member. The project and faculty adviser are to be identified prior to starting BMTH 496, and a plan of study is to be agreed upon by the student and adviser prior to the initiation of the thesis sequence. The thesis will culminate in a written report and a public presentation/defense that will be evaluated by a thesis committee consisting of at least the adviser and two other members of the faculty. BMTH 496/497/498 must be taken in consecutive quarters.

FOCUS AREAS
Students earning a major in Biomathematics are encouraged to gain depth in a particular mathematical or scientific area. By pursuing focused coursework in the following suggested areas, students will advance their preparation for graduate studies or careers in mathematical life sciences. Gaining depth through advanced electives also provides biomathematics students with an opportunity to apply knowledge gained through BMTH coursework. The following focus areas are illustrative examples to consider.

 Applied Mathematics BE 350 Biocontrol Systems MA 275/375 Discrete and Combinatorial Algebra I/II MA 332 Intro. to Computational Science [required for major] MA 330 Vector Calculus MA 342 Computational Modelings MA 366 Real Analysis MA 367 Functions of a Complex Variable MA 436 Introduction to Partial Differential Equations MA 472 Graph Theory MA 491 Introduction to Mathematical Modeling
 Biochemistry BMTH 312 Bioinformatics BMTH 310 Mathematical Biology CHEM 251/252/253 Organic Chemistry I/II/III CHEM 326 Bioanalytical Chemistry CHEM 330/331 Biochemistry I/II CHEM 430 Advanced Biochemistry
 Bioinformatics & Biostatistics BMTH 312 Bioinformatics MA 381 Intro. to Probability with Statistics [required for major] MA 382 Intro. to Statistics with Probability MA 382 Engineering Statistics II MA 386 Statistical Programming MA 482 Bioengineering Statistics
 Biomechanics BE 361 Biomaterials BE 525 Biomedical Fluid Mechanics BE 534 Soft Tissue Mechanics BE 539 Multiscale Biomechanics BE 545 Orthopedic Biomechanics
 Biophysics PH 302 Biophysics BE 525 Biomedical Fluid Mechanics
 Cellular and Molecular Biology BIO 220/230 Prokaryotic/Eukaryotic Cell and Molecular Biology [required for major] BIO 205 Cellular Physiology BIO 411 Genetic Engineering BIO 421 Applied Microbiology BIO 431 Genomics and Proteomics BMTH 310 Mathematical Biology CHEM 455 Natural Products [offered irregularly]
 Computational Biology BMTH 310 Mathematical Biology BMTH 413 Computational Biology CSSE 220 Object Oriented Software Development CSSE 333 Database Systems CSSE 403 Programming Language Paradigms CSSE 431 Artificial Intelligence MA/CS 335 Introduction to Parallel Computing MA 342 Computational Modeling MA 433 Numerical Analysis MA 435 Finite Difference Methods MA/CS 473 Design and Analysis of Algorithms
 Ecology BIO 130 Evolution and Diversity BIO 264 Introduction to Environmental Science BIO 320 Ecology BMTH 310 Mathematical Biology CHEM 371 Environmental Analytical Chemistry
 Epidemiology & Pathology BE 310/320 Analysis of Physiological Systems I/II BIO 410 Infection and Immunity BIO 441 Virology BIO 451 Cancer Biology BIO 461 Evolutionary Medicine BIO 471 Genetic and Molecular Analysis of Inherited Human Disease BMTH 310 Mathematical Biology
 Evolution BIO 130 Evolution and Diversity BIO 330 Evolutionary Biology BIO 461 Evolutionary Medicine SV 386 Human Evolution
 Imaging and Optics BE 435 Biomedical Optics ECE 480 Introduction to Image Processing BE 541 Medical Imaging Systems MA 429 Mathematical Methods of Image Processing PH 302 Biophysics
 Medicine BIO 120 Comparative Anatomy and Physiology BIO 410 Infection and Immunity BIO 441 Virology BIO 451 Cancer Biology BIO 461 Evolutionary Medicine BIO 471 Genetic and Molecular Analysis of Inherited Human Disease BE 541 Medical Imaging Systems CHEM 251/252/253 Organic Chemistry I/II/III CHEM 330/331 Biochemistry I/II CHEM 420 Advanced Biochemistry
 Physiology BIO 120 Comparative Anatomy and Physiology BIO 205 Cellular Physiology BE 310/320 Analysis of Physiological Systems I & II BE 520 Introduction to Brain Machine Interfaces