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Courses
in Bioinformatics |
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The following Bioinformatics courses are being offered at Rensselaer
Polytechnic Institute.
- ALGORITHMS IN COMPUTATIONAL MOLECULAR BIOLOGY
String algorithms; including finite state machines, suffix trees,
hash tables and biosequence alignment algorithms. Statistics of
sequence comparisons. PAM theory and general log-odds scoring
systems. Phylogenetic reconstruction and Hidden Markov Models.
Course
home page (Winter/Spring 2003)
- BIOINFORMATICS I
Networks, sequence database and alignment theory, phylogenetics,
and secondary structure predictions and DNA analysis.
Course description
- BIOINFORMATICS II
Biomolecular structure, dynamics and function, protein motifs,
modeling and analysis of 3-D macromolecular structures.
Course description
- BIOINFORMATICS: ALGORITHMS AND SYSTEMS
Main principles of bioinformatics, traditional concepts of sequence
alignments, phylogenetic trees, and structure prediction. High
dimensional indexing, database support, text mining, microarray
data analysis, and data mining.
Course
home page (Spring 2003)
- DRUG DISCOVERY
Applying bioinformatics and genomics to the discovery of synthetic
molecules to treat human disease.
Course description
- MOLECULAR BIOLOGY II
Provides an in-depth examination of molecular mechanisms involved
with gene regulation and recent advances in genetic engineering.
Course description
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Involved Faculty
Curt M. Breneman, Ph. D. (UC
Santa Barbara), Associate Professor, Chemistry
Christopher Bystroff, Ph.
D. (University of California, San Diego), Associate Professor
John C. Salerno, Ph. D. (University
of Pennsylvania), Professor
Susan M.E. Smith,
Ph. D. (Rensselaer Polytechnic Institute), Clinical Associate Professor,
Biology
Mark P. Wentland, Ph. D. (Rice
University), Professor, Chemistry
Mohammed J. Zaki, Ph. D. (University
of Rochester), Associate Professor in Computer Science
Michael Zuker, Ph. D. (Massachusetts
Institute of Technology), Mathematical Sciences, Adjunct in Biology
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Course Descriptions
• Bioinformatics I (BIOL-4540)
The course covers concepts and methods related to information processing
in biological systems. Concepts covered include homology, identity
and similarity; mechanisms and measures of molecular evolution; introduction
to data bases (e.g., GenBank, PDB); search algorithms (BLAST); pairwise
sequence alignment using dynamic programming (GAP, BestFit); progressive
methods for multiple alignment (CLUSTAL, PILEUP). Selected topics
include molecular biology applications (shotgun sequencing analysis,
PCR primer design).
Prerequisites: MATH-1020, BIOL- 4620, BIOL- 4760.
The course is offered in the Fall term annually.
4 credit hours
• Bioinformatics II (BIOL-4550)
The course covers use of homology to extract information about structure
and function from amino acid sequences. Concepts covered include structural
homology, structural motifs and data bases, homology modeling of macromolecules,
energy minimization and relaxation, molecular docking, and introduction
to molecular dynamics.
Prerequisite: BIOL-4540 (Bioinformatics I).
The course is offered in the Spring term annually.
4 credit hours
• Drug Discovery (CHEM-4330)
This course will focus on the applications of bioinformatics and genomics
to the discovery of organic molecules useful in treating human disease.
Starting with a therapeutically relevant molecular target, topics
include the pharmacophore, high throughput screening, combinatorial
chemistry, chip-based automated synthesis, and combinatorial biology.
In the laboratory, students will practice the chemical and biological
aspects of screening and develop a pharmacophore model.
Prerequisites: CHEM-2220 or CHEM-2260 or permission of instructor.
The course is offered in the Spring term annually.
4 credit hours
• Molecular Biology II (BIOL-4630)
This course will provide students with an in-depth examination of
the molecular mechanisms involved with gene regulation. The goal of
this course will be to expose students to the complexity of regulation
of specific biological phenomena, emphasizing current areas of research
interest. Examples of semester topics include aspects of immunity,
the cell cycle and oncogenes, phage replication and infection, and
cellular growth and development.
Prerequisites: BIOL-4720, BIOL-4760.
The course is offered in the Fall term annually.
4 credit hours
Please
follow this link to view list of all courses offered by Rensselaer
Polytechnic Institute, in PDF format
Click here to visit homepage
of Rensselaer Polytechnic Institute Catalog 2003-04
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