CSCI 319: Integrative Bioinformatics, Genomics, and Proteomics Lab

Handouts:

• Sept. 14 Primers Lab Handout
• Sept. 15 Unix Basics Reference Handout
• Sept. 15 Lab Worksheet 1: Unix/Xemacs
• Sept. 15 Lab Worksheet 2: Perl
• Sept. 15 Perl RegEx Handout
• Sept. 21 Phylogenetics Handout

• sequences.fasta -- the Ras2 sequences from lab on Wednesday
• nicotiana.fa
• genes.pl
• nic_genes.txt -- the output from genes.pl run on nicotiana.fa
• xlate.pl

Resources and Links:

• The yeast genome database
• NCBI's BLAST page
• ClustalW at EMBL
• CodeHop site for primer design

• Unix help (University of Edinburgh site)
• Unix Tutorials
• Unix file system help
• Unformatted basic unix commands
• Online Beginning Perl book
• More perl with some bioinformatics...(course page from my Perl Winter Study course)

• Phylip Home Page
• Phylip detailed documentation