1. Group Medicago Basic Project: Gene expression in yeast Advanced Bioinformatics

2. Members Jente Ottenburghs Lifei Li Yuebang Yin Nick Brouwers

3. Objectives Make a top 100 of the most highly expressed genes Find correlations between gene expression & transcripts GC content Transcript length Intron length Codon usage (optional) Visualization of an interaction network Make use of Tophat, Cufflinks, perl etc.

4. Steps Run Tophat Use Tophat output as Cufflinks input Use Cufflinks output to build Perl scripts Show our analysis and hopefully visualization

5. Plan: Data gathering Create output with Cufflinks Build Fasta from transcripts.gtf and genome.fa (all) Vizualize interaction networks (Yuebang) Build scripts to: analyse our Fasta, GC content, length etc. (Nick) implement gene expression (Lifei Nick) sort gene expression (Lifei and Nick) show intron length (all together) determine condon usage (Jente)

6. The end! (or more or less the beginning...)