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Michigan State
University Bioinformatics and Molecular Biology Education
www.genomics.msu.edu
http://biomodel.msu.edu/
Biochemistry 961 (Computational
Genomics) (Wilkerson, DeWitt, Halgren, Larson, Landgraff, Carr) (Spring
Semester, 2002-2003)
This is a hands-on Graduate level course on the computer analysis of
DNA and protein sequences as well as microarray data. 50% of class time
is dedicated to PERL programming techniques to automate and simplify
the analysis of large data sets. Other topics in Bioinformatics covered
include:
1. Introduction to the Unix operating system
2. DNA sequence analysis using the GCG package of programs via Web-based
and command line interfaces.
3. Assembly of genomic DNA sequencing projects using the Staden software
suite.
4. Mutation/SNP analysis using the Staden software suite.
5. Clustering of EST sequences using the program STACKPACK
6. Database searching and comparison using Blast
7. Microarray analysis using Tree View, Cluster and R
8. Practical analysis using whole Genome Databases (Ensemble)
9. Excel and Access for data analyses and presentation.
Statistics and Bioinformatics
Lecture Series:
http://www.stt.msu.edu/~huebner/Seminar/talks.html
Microbiology and Molecular Genetics seminar schedule:
http://www.msu.edu/unit/mic/micdept/seminars.htm
Center for Biological Modeling Seminar series:
http://biomodel.msu.edu/SemCurrent.htm
Perl Programming for Bionformaticists (Halgren, Larson, planned
for May 2003)- a 1 week intensive course for Post-doc’s and faculty
members.
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Biochemistry
and Molecular Biology at MSU |
| BMB 801 |
This course
is designed for advanced students and assumes a thorough knowledge
of basic biochemical structures, biosynthetic pathways, and general
concepts normally covered in a biochemistry course consisting of 100
hours of formal lectures. However, the goal of this course is not
to be all-inclusive in the topics covered. Rather, specific topics
will be selected to emphasize key developments and central concepts
of historical and current interest. |
| BMB 801 |
This course
is designed for advanced students and assumes a thorough knowledge
of basic biochemical structures, biosynthetic pathways, and general
concepts normally covered in a biochemistry course consisting of 100
hours of formal lectures. However, the goal of this course is not
to be all-inclusive in the topics covered. Rather, specific topics
will be selected to emphasize key developments and central concepts
of historical and current interest. |
| BMB 802 |
Metabolic
regulation and molecular endocrinology. Molecular basis for metabolic
regulation, molecular signalling mechanisms, and mechanisms for allosteric
and covalent protein modifications. |
| BMB 803 |
The course
starts with introduction of protein structure and dynamics and proceeds
to ligand binding, catalysis, stability and folding. Thermodynamics
and kinetics governing protein structure, folding and function are
emphasized. Structural aspects of evolutionarily related (homologous)
proteins are discussed - what can change and what remains the same,
and why. Mechanisms for generation of functional diversity from a
relatively small set of structural components are explored. The course
then covers a range of topics relating to protein folding and interactions
with other moleculesprotein structure prediction and evolution, protein
trafficking within the cell, peptide libraries and structure-based
protein and drug design, and industrial applications of proteins. |
| BMB 804 |
Biochemical
Mechanisms and Structure Structures, methods of structural analysis,
synthesis, and reaction mechanisms of biological substances, including
proteins, carbohydrates, lipids, porphyrins, phosphate esters, enzymes,
and coenzymes. |
| BMB 825 |
Cell Structure
and Function. Molecular basis of structure and function in cells.
Fundamental properties of cells: reproduction, dynamic organization,
integration, programmed and integrative information transfer considered
through original investigations in all five kingdoms. |
| BMB 829 |
Methods of
Macromolecular Analysis and Synthesis. Techniques of isolation and
characterization of macromolecules. Uses of the computer in structure-function
analysis of macromolecules. |
| BMB 831 |
Physiological
Biochemistry, Mammalian physiological biochemistry with metabolic
interpretation of normal and altered physiological states of humans
and other mammals. |
| BMB 855 |
Special Problems.
Laboratory or library research on special problems in biochemistry. |
| BMB 864 |
Plant Biochemistry.
Biochemistry unique to photosynthetic organisms. Photosynthetic and
respiratory electron transport, nitrogen fixation, carbon dioxide
fixation, lipid metabolism, carbon partitioning, cell walls, biosynthesis
of plant hormones. |
| BMB 960 |
Recent advancements
in bacterial, fungal, plant, animal and human genome projects have
elevated genetic research to a new level. In concert, emerging computational
and experimental tools have led to novel strategies for the investigation
of biological and biochemical processes across organisms on a genomic
scale. This course has been newly developed to provide the students
with a current overview of developments in the areas of structural
and functional genomics, as well as proteomics. Examples from eukaryotic
(animal, plant, and fungi) and prokaryotic organism will be covered.
One emphasis will be on the demonstration of available Internet resources.
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| BMB 961 |
DNA and Protein
Sequence and Structural Analysis Computer Lab. Prerequisites: Biochemistry
801/803 or detailed knowledge of protein and nucleic acid sequences
and structures; and some use of computers. Selected topics in Biochemistry.
Topics from areas of biochemical genetics, biochemistry of development,
biochemical evolution, complex proteins, lipid metabolism, or other
areas of contemporary biochemical research interest. |
| BMB 978 |
Seminar in
Biochemistry. Seminars on research topics in biochemistry, mainly
by visiting scientists |
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