Bioinformatics Workshop

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Short Version
Course Proposal (word) The bioinformatics workshop had as its goal the formulation of a course on bioinformatics. This is the current thinking on the course. Please send corrections, suggestions, etc to Mr-IdeaHamster.
Schedule of topics
Prosite Tour (movie)
Getting started (movie)
Genome Mapview (movie)
Protein Structure Prediction (movie)
Ras Gene (movie)
Online Mendelian Inheritance in Animals (OMIA) This is a database of genes, inherited disorders and traits in more than 135 animal speciesThe database contains textual information and references, as well as links to relevant PubMed and Gene records at the NCBI. To find out about the genetics of your dogs coloration try searching on "coat colour".  That's right, you need to put a u in color!
Gene Regulation in Eukaryotes
Nucleotide Pairing
Human Proteome Folding Project
Protein Folding Movie
Nematostella vectensis genome searching
Minimotif Miner This site searches a user specified protein to find short sequences of amino acids that are known to perform some specific function in other proteins.
Genome Consortium for Active Teaching (GCAT) is an organization whose intent is to bring genomics into the undergraduate curriculum, primarily through student research. GCAT faculty use DNA microarrays to bring the excitement of genomic research to students.
SNP for Seed Shattering in Rice discusses searching for the SNP that overcame the "easy to shatter" property of rice. Domestication of rice and other grains has bread out the "easy to shatter" property making them more easily harvested. This one report covers many of the bioinformatics techniques, terms, strategies and evolution connections. As a classroom exercise, understanding this one article could be a student project that covers many topics: single-nucleotide polymorphisms (SNPs), quantative trait locus (QTL), orthologs, haplotypes, open reading frame (ORF), evolution, etc.
Bioinformatics Resources Guide This site provides brief descriptions of more than 1500 free bioinformatics databases and tools in categories such as immunology, genomics, and RNA. If you're looking for data on how pathogens alter gene activity in immune cells, for instance, follow the link to the Macrophage Expression Atlas in the U.K. Or the site can help you sift through the more than 70 databases with information on plant genes and proteins.
email workshop participants
Introductory Bioinformatics Class
Examining Natural Selections in Humans This lecture reviews the approaches for detecting natural selection in humans using genome-wide data surveys, describes results from recent studies examining genome-wide data sets and discusses the prospects and challenges ahead.
Mammoth DNA Analysis
Bioinformatics on the internet
How bioinformatics relates to SWC classes
DNA coding primer
Bioinformatics Website
BLAST on NCBI notes
Multiple Sequence Alignment at EBI notes
Large Numbers and Evolution
BLAST Sequence Analysis
Bioinformatics for HIV
Mouse Proteome Project This site pinpoints more than 3200 proteins in six organs. The project's database indicates whether each protein is present in four cellular compartments, such as the cytoplasm and mitochondria.
Glossary (NCBI)
Glossary (CUNY)
Glossary (SSU) (spacer blah blah blah blah blah blah blah blah blah blah blah blah blah)
Bioinformatics Educational Resource at EBI, AKA Bioinformatics for Dummies This site provides short and concise introductions to basic concepts in molecular and cell biology and bioinformatics. The main emphasis is placed on making it as easy as possible for the user to understand which tools and databases are available from the EBI and from sites belonging to its collaborators. The site content aims to make these services easier and more accessible but also provides links to other sites where similar resources are maintained and well supported.
Workshop Coordinator-- Lukas Buehler