Bioinformatics & Genomics
Courses, Journals, Definitions
Portals & Comprehensive Servers
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BE561 - Protein and DNA Sequence Analysis
[Boston Univ.] A site with slides and text for an introductory bioinformatics course.
[Yale Univ.] An online course in bio-informatics. Topics include sequence alignment, biological database design, geometric analysis of protein structure, and macromolecular simulation.
Computational Molecular Biology
[Stanford Univ.] A practical, hands on class for molecular biologists and computer scientists covering the major issues concerning representation and analysis of biological sequences and structure. Some topics covered are: accessing molecular databases, pattern
search, classification of sequence and structure, alignment of sequences, rapid similarity searching, phylogenies, automated pattern learning, representing protein structure, modeling protein structure by homology, protein-protein docking and protein-ligand docking.
[The International Center for Genetic Engineering and Biotechnology] This is an introductory tutorial for biologists interested in weak protein sequence similarities which can not be found with simple database search.
Gene Identification and Protein Functional Analysis
[HGMP-RC] This course takes students through techniques for analyzing nucleic acid sequences for coding regions and other features for identification.
[CHI] (Zurich, Switzerland) January 20-21, 2000. Topics included: Data Management, Linking Microarrays with Proteomics, Software Tools for Use with Microarrays, Integrating Bioinformatics with Drug Discovery, Progress in Data Visualization, and Gene Expression Analysis.
Making the most of your hidden Markov models
[University of Califoria, Santa Cruz] (ISMB99 Tutorial Material) This tutorial is intended for people who know what HMMs are but want to know how to use them most effectively. It details the tricks
used in the SAM-T98 method (in 1998 the best method for remote homology detection in proteins). Full text articles are also provided.
Marrying Structure and Genomics
[EMBL] A discussion of possible directions in a new area of research uniting protein structure determination and genomics.
Multiple Alignment and Multiple Sequence Based Searches
[Washington University - St. Louis] This is a guide by Sean Eddy on the use of multiple alignment and profile search software to detect informative remote homologies.
[The Protein Society] "Protein Science serves as an international forum for publishing original reports on proteins in the broadest sense. The Journal aims to unify this field by cutting across established disciplinary lines and focusing on "protein-centered" science. Protein Science encompases the structure, function, and biochemical significance of proteins; their role in molecular and cell biology, genetics, and evolution; and their regulation and mechanisms of action."