Kam D. Dahlquist (kdahlquist@lmu.edu) and John David N. Dionisio, Co-Instructors
- Note
- This page is maintained as an archival record of the course shown above, and as such, some links on this page may no longer be valid nor accessible. They are kept here as a record of the resources that were available at the time of the course offering.
All materials are in PDF. Sorry, you won’t find source code or solutions here; contact us directly for those.
Related External Links
These links take you to Web sites beyond this server.
Biological Databases
- Nucleic Acids Research Annual Database Issue (January 2006)
- NCBI: National Center for Biotechnology Information
- UniProt (formerly known as SwissPort)
- Ensembl
- Gene Ontology
- PDB: Protein Data Bank
- Pfam
- KEGG: Kyoto Encyclopedia of Genes and Genomes
- BioCyc (including EcoCyc, MetaCyc, HumanCyc)
- Model Organism Databases
| Saccharomyces cerevisiae | yeast | SGD: Saccharomyces Genome Database |
| Caenorhabditis elegans | nematode/roundworm | WormBase |
| Drosophila melanogaster | fruit fly | FlyBase |
| Mus musculus | mouse | MGI: Mouse Genome Informatics |
| Rattus rattus | rat | RGD: Rat Genome Database |
| Arabidopsis thaliana | Thale cress (mustard plant) | TAIR: The Arabidopsis Information Resource |
Biological Dictionaries Online
- Biology-Online.org
- Dictionary of Cell and Molecular Biology
- BioTech’s Life Science Dictionary
- Cancer Dictionary
- Biomedical Abbreviation Server
- Wikipedia is a good starting point for virtually any lookup, biology or otherwise
- Wikipedia search for bioinformatics
Journals in Bioinformatics and Related Areas
- High-impact, general journals that publish the occasional paper
- Specialty journals
- Industry news: Genome Technology
Software and Programming Resources
- BLAST: Basic Local Alignment Search Tool
- The GenMAPP home page
- Open Bioinformatics Foundation
- Pick a language or technology: BioPerl, BioJava, BioPython, BioRuby, BioPipe, BioSQL/OBDA, BioMOBY, BioDAS, BioLisp
- The SourceForge home page
- The PostgreSQL home page: an industrial-strength, open source database management system
- Go to http://jdbc.postgresql.org to access PostgreSQL’s JDBC Driver
- Hibernate home page
- Xdoclet home page
- XML resources:
- Tutorial and reference on XML Schema (xsd)
- JAXB home page
- HyperJAXB home page
- The LaTeX home page
- The MikTeX home page: a highly popular LaTeX implementation
- The Perl Documentation Web site
- Perl Monks: Ask for Perl advice here, and ye shall receive
