Biomedical Mathematics Program
(Program in Mathematical and Computational Biology) 



Department of Mathematics
Florida State University
The Mathematics Department offers a PhD
and Master of Science degrees in Biomedical Mathematics. This
is an interdisciplinary program including topics from computational
biology, computational structural biology, bioinformatics,
evolutionary game theory, and mathematical physiology. Students in
Biomedical Mathematics develop a mix of biological, mathematical,
statistical, and computational skills. Coursework is flexible and
tailored toward the needs and goals of individual students.

Contents

Degree options

Faculty

Admission

Advisement and Supervisory Committees

Curriculum and Requirements
Degree Options
Ph.D., Mathematics. An interdisciplinary research
area is available in biomedical mathematics. Students can work in a
variety of fields represented by the biomedical
mathematics faculty. Recent Ph.D graduates in this area have
worked with Professors
Jack Quine and De
Witt Sumners, some with funding through Research Training Grants
or the Program in Mathematics and Molecular Biology. Students
participate in programs of the
Institute for Molecular Biophysics, work on research at the
National High Magnetic Field
Laboratory, or collaborate with medical researchers at other
universities.
Guidelines for Admission to PhD Candidacy
Master of Science, Biomedical Mathematics.
This is a twoyear program with 36 hours of course work and seminars. Students
develop necessary skills in a number of areas necessary to obtain
employment in government and industry, and to work on applications
of mathematics to medicine, drug development and biotechnology.
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Faculty.
FSU faculty members from five departments are involved in this
effort. PhD's are directed by one or more of the Mathematics
faculty, often in conjunction with faculty from the other
departments.

Mathematics faculty:

Richard Bertram
(mathematical physiology, protein structure determination)

Monica Hurdal
(human brain mapping)

Michael
MestertonGibbons (game theoretic modelling)

Jack Quine (protein
structure from solidstate NMR)

De Witt Sumners (DNA
topology, human brain mapping)


Affiliated faculty from other departments:

Biological Science: Lloyd Epstein, George Bates, Tom Keller,
Timothy Moerland

Chemistry: Michael Chapman, Tim Cross

Computer Science: Ted Baker, David Gaitros, Michael Mascagni

Statistics: Myles Hollander, Lei Li
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Admission.
The
Department
of Mathematics requirements for exam scores, recommendations and
statements are necessary. The typical first semester courses in the
program require knowledge of undergraduate mathematics including at
least multivariate calculus, ordinary differential equations and
linear algebra. A basic knowledge of statistics, computer
programming, genetics is helpful.
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Advisement and Supervisory Committees.
Students have a faculty advisor to recommend and approve coursework.
For PhD students, a Supervisory Committee, which determines the
program, is appointed consisting of at least three faculty members,
with at least one from the Department of Mathematics and at least
one from another participating department. Substitutions for courses
for which the student has prior credit must be approved by the
advisor.
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Curriculum.
The core curriculum includes 5 courses to be satisfied by all
students. Remaining courses are chosen from a list of options,
depending on the student's interest and faculty advice.
Students also participate in
seminars and workshops.
The 36 semester hours of required courses leave some time within two
years for the student to take undergraduate courses in areas where
the student needs extra preparation. The student coming to the
program from Mathematics, Computer Science or Statistics
undergraduate majors, for example, may need to take the
undergraduate genetics course in their first term. Such students are
strongly encouraged to begin study in summer "C" term (
about June 25 ).
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Requirements. PhD and Master's students in Biomedical
Mathematics complete 36 hours of approved coursework, of which at
least five 3hour courses must be in the Department of Mathematics.
Students completing this coursework are awarded a Master's degree.
The program is typically structured as follows; all courses must be
approved by the advisor.
Required courses:
 MAP 5485 Introduction to
Mathematical Biophysics
 MAD 5xxx Computational Methods in Biology (new Spring
2002)
 BCH 5425 Molecular Biology (Spring) or
PCB 5525 Molecular Biology (Fall)
 STA 5176 Statistical Modeling with applications to biology
(New Fall 2001)
 MAP 6437 Topics in Biomedical Mathematics (New Spring 2002)
student resources and projects course
 MAT 6939 Advanced Seminar in Biomedical Mathematics (1 hour
credit each semester)
 Normally the student will be registered
in each semester of residence.
 As part of the seminar program,
announcements will be made of available computer and biology
laboratory workshops. Participation is required to earn an
“S” in Seminar unless scheduling exigencies prohibit.
And one or more of:
 BCH 5205 Structure and Function of Proteins
 BCH 5887 Macromolecular Xray Crystallography
 BCH 5887 Biomolecular NMR Spectroscopy
 PCB 5595 Gene Expression and Development
 PCB 5137 Advanced Cell Biology
 Other courses must be approved by advisor for program.
And two or more of:
 CGS 5428 Relational Database
Theory
 COP 5710 Database Systems
 CAP 5600 Artificial Intelligence
 CAP 5615 Artificial Neural Networks
 Cxx xxxx Other graduate Computer Science Science
(must be approved by advisor for program)

 STA 5326 Distribution Theory and Inference

 STA 5xxx Other nondualnumbered statistics as approved by
advisor for program
Additional courses from the following, all together to total 36
hours of listed courses of which at least 15 hours is in the
Department of Mathematics:
 MAD 5708 Numerical Analysis II
 MTG 5326 & 5327 Topology I & II
 MAS 5307 & 5308 Groups Rings Vector Spaces I & II
 MAD 5305 Graph Theory
 MAS 5731 Computer Algebra
 MAD 5420 Numerical Optimization
 MAA 5406 & 5407 Complex Variables I & II
 MAA 5616 & 5617 Measure and Integration I & II
 MAD 5xxx Scientific Visualization
 MAP 5345 & 5346 Elementary Partial Differential
Equations I & II
 MAT 5945 Internship in Biomedical Mathematics (The student
must petition and present appropriate evidence of performance to
count hour(s) toward degree credit.)
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Course Descriptions
Introduction to Mathematical
Biophysics, MAP 5485 (see
Fall 2000
course online)
Most students will take this course in their first semester.
Course Objective: The use of mathematics and
computation is becoming increasingly important in biology and
medicine as scientists search for better ways to process all the
information now available about the molecular structure of living
organisms. The goal of the course is to introduce students from a
variety of disciplines to some of the many uses of mathematics in
modern molecular biology and to the use of symbolic and numerical
packages for doing the computations.
Graduate Bulletin Description: Mathematical tools in
Biophysics: symbolic and numerical packages for matrix
computations, rotation matrices, Euclidean motions, lattices,
continuous and discrete curves in space, torsion angles, gram and
distance matrices, graphs, trees and strings. Applications such as:
protein secondary structure, structure determination by
crystallography and NMR, writhing twisting and knotting of DNA,
sequence alignment, wavelets.
Prerequisites: Calculus, linear algebra.
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Molecular Biology, BCH 5425
Course Description:
Course discusses gene organization and replication;
control of gene expression in transcription and
translation; application of recombinant DNA techniques.
Prerequisites: Introductory biochemistry or consent of instructor.
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Molecular Biology, PCB 5525
Course Description: This course provides an
introduction to modern molecular biology and biotechnology. The
central question that we will explore is: how is genetic information
encoded in DNA and how do cells control the expression of their
genes? Topics covered include the structure and properties of DNA
and RNA, DNA replication and repair, recombinant DNA technology, the
genetic code and translation, control of transcription and
translation, molecular biology of cancer, bioinformatics, human gene
therapy, and applications of genetic engineering to agriculture and
industry.
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Gene Expression and Development, PCB
5595
Course Description: This course will provide
graduate students an in depth study of the molecular mechanisms of
gene expression and DNA replication in the contexts of the control
of cell development and cell differentiation. In addition to
textbook readings the students will read and discuss primary
literature sources to identify current issues and problems in the
field of molecular biology. Topics covered include chromatin
structure and gene activation, DNA replication, DNA maintenance,
damage, and repair; RNA synthesis and the transcriptional unit;
transcription initiation; transcription regulation in prokaryotes
and eukaryotes; translation and posttranslational mechanisms;
biotechnology and bioinformatics.
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Data Structures, Algorithms, and
Generic Programming, COP 4530.
Course Description: Definition, use, and
implementation of generic data types and algorithms using a modern
programming language; reusable program components.
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Database Systems, COP 5710
Course Description: Prerequisites: COP 4020, 4530,
4610. Use of a generalized database management system;
characteristics of database systems; hierarchical, network, and
relational models; file organizations.
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Relational Database Theory, CGS
5428
Course Description: Prerequisites: COP
4531. For graduate nonmajors and graduate majors needing
foundational work in computer science; credit may not be applied
towards a graduate degree in computer science. Basic file
organization methods, indexed files, multikey processing;
architecture of database management systems; relational,
hierarchical network, and semantic database models; normalization;
distributed databases and file systems; practical use of a DBMS and
the building of a database application.
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This document is maintained by
Melissa Elaine
Smith / smith@math.fsu.edu
Last modified: 8 August 2001