PDF
file of Lecture Content.
Over the past few years the deployment of Web-based tools for Bioinformatics has exploded. It seems to me that there needs to be a regular introduction and/or review of these materials because they change so rapidly and have become so powerful and generally easy to use. This seminar series is aimed at the first year Graduate Student but all Graduate Students, Research Staff and Faculty are welcome. The seminars will begin with the powerful NCBI resources but will include resources from UCSC, UC Berkeley, EMBL, EXPASY, ENSEMBL, Kyoto, Baylor, MUSC and everywhere else I can find things.
This series is being called a "seminar" but there will be no enrollment or credit. In that regard it will be more like a journal club. Attendees will be welcome to select from the series the sessions that are the most interesting. The sessions will each take an hour to focus on a particular web site or concept. There will be a general introduction, a practical example of the use of the resource and a "take home" example. All of the web-links, and as much of the "how-to" material as possible will be available on a web site as either HTML documents and/or in PDF format.
Please understand that the order and content of these presentations is evolving weekly. I won't place the material on-line until the day of the presentation.
September 10 NCBI overview, Education
materials and introduction to ENTREZ. PDF
file of Lecture Content.
September 17 Similarity Searching BLAST,
FASTA PDF
file of Lecture Content.
September 24 DNA analysis
Tools Including SeqWeb and W2H. PDF
file of Lecture Content.
October 1 Protein analysis Tools
Including SeqWeb and W2H. PDF
file of Lecture Content.
October 8 Structure Viewers I Cn3D and SwissPDBViewer
PDF
file of Lecture Content.
October 15 Structure Viewers II RASMOL,Protein
Explorer,CHIME, ViewerLite. PDF
file of Lecture Content.
October 22Human Genome Tools NCBI
Mapviewer. PDF
file of Lecture Content.
October 29VISTA tools at UC Berkeley. PDF
file of Lecture Content
November 5 UCSC Genome Tools and Viewer PDF
file of Lecture Content
November 12 ENSEMBL annotation Project PDF
file of Lecture Content
November 19 Non-Human Genome Tools PDF
file of Lecture Content
November 26Variation tools OMIM dbSNP
PDF
file of Lecture Content
December 3 Expression Resources
PDF
file of Lecture Content
December 10 RNA analysis tools. PDF
file of Lecture Content
January 7, 2004 Additional Tools: Spectral Karyotyping
and Comparative Genomic Hybridization Database (SKY/CHD),dbMHC, Clone Resources.PDF
file of Lecture Content
January 14, 2004 Phylogenetic Tools PDF file of lecture content.
January 21, 2004 Local Proteome Tools MASCOT, Profiles3D, Matchmaker, Modeller
January 28, 2004 Unix-based molecular modeling Tools.
November 29, 2005 Local and Web-based tools for viewing and discovery of drugs.
