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New Mexico State University

Molecular Biology Program Bioinformatics and Educational Resources - Tutorials & Course Materials

These educational materials are intended for use in college-level courses.

Usage Policy: You may link to these resources and download PowerPoint presentations for educational, non-commercial use. Copying and including these materials on other web pages is prohibited except when approved by SWBIC.

Tutorials

Computational Management of Molecular Biological Information - This basic bioinformatics course was authored for SWBIC by Dr. Narayanan B. Perumal from Indiana University Purdue University at Indianapolis. The course is presented in lecture notes format with accompanying laboratory exercises and will provide a good overview of the fundamentals of Computational Molecular Biology. Links to a large number of bioinformatics related resources on the Internet are provided within the course modules.
Note: Some of the links in this tutorial no longer work. We will try to repair these links as time permits.

Soil Bioremediation - A PowerPoint presentation giving reviews and case histories of four major bioremediation processes: bioventing, land treatment, slurry phase treatment, and composting.
Note: Presentations were prepared using Microsoft Power Point 97. They may be viewed on-line or downloaded and viewed locally using Microsoft Power Point.

Introduction to Environmental Engineering - A course covering principles in environmental engineering and science: physical chemical systems and biological processes as applied to pollution control.
Note: Some of the links in this tutorial no longer work. We will try to repair these links as time permits.

Course and Educational Materials

Bioinformatics & Genome Analysis [NMSU, Molecular Biology 470, Fall 2006] - This course introduces the concepts of the discipline of bioinformatics and the basic computational tools and methods that are used in the organizing and analysis of data. It is intended for senior- and graduate-level students in a biological science. Materials available here that could be used in other Bioinformatics courses include the schedule of topics and relevant links for each topic, supplementary materials, and assignments. In the Schedule page, all of the PowerPoint presentations used in the class may be viewed (requires use of Internet Explorer). Links to the previous websites for this course provide additional assignments, including shell script programming in Unix.

Bioinformatics Presentations by Dr. R. L. Bernstein - Many detailed PowerPoint presentations suitable for introductory upper division or graduate courses in bioinformatics. The presentations are organized for lecture or reference, with an index describing their use. The course materials emphasize bioinformatics applied to DNA and protein sequences and protein structures. The analysis tools described are accessible through freely available Internet resources. Other topics like molecular phylogenetics and PCR primer design are also introduced, and some of the materials would also be suitable for use in genetics or genomics courses. These materials were developed by Dr. R. L. Bernstein of San Francisco State University while on sabbatical at SWBIC and were presented in his bioinformatics course at SFSU. SWBIC resources and presentation materials have been incorporated into the slides.

Genome Sequencing, Fragment Assembly, and the use of Consed, Phred, and Phrap - A PowerPoint presentation on genome sequencing methods with a focus on how sequence fragments are assembled. Topics include: review of DNA structure, polymerase chain reaction, sequencing chemistry, raw sequence data, shotgun sequencing approach, and treatment and assembly of sequence fragments. The methods used by Phred and Phrap for base calling, sequence quality determination, and fragment assembly are treated extensively, including computer science techniques used by these programs. Authored by Oliver Hampton (SWBIC graduate student employee), Phuc Nguyen, and Alessandro Dal Palú (NMSU Computer Science graduate students).
-[Prepared using Microsoft Power Point 2000. It may be viewed on-line or downloaded and viewed locally using Microsoft PowerPoint.

SWBIC Clip Art - These images may be used without obtaining permission for non-commercial personal and educational purposes.