Day 3

1. Secondary structure

Presentation: lesson_pred2D_3

Files for practical part: MR1_fasta / glul_fasta / glul_aln

Links:
http://www.jalview.org
http://www.ncbi.nlm.nih.gov/gene
http://www.compbio.dundee.ac.uk/jpred4

2. Structure modeling by homology

Presentation: lesson_model3D_3

Links:
http://aquaria.ws
http://aquaria.ws/Q9HD67/
http://genetics.bwh.harvard.edu/pph2

3. Protein feature prediction

Presentation: lesson_predTM_3

Files for practical part:littleMSA_fasta / ferredoxins2_fasta

Links:
http://www.uniprot.org/uniprot/Q28WW9
http://www.uniprot.org/uniprot/Q28WW9.fasta
http://www.cbs.dtu.dk/services/TMHMM

4. Composition bias and repeats

Presentation: lesson_bias_3

Files for practical part: MR1_fasta / littleMSA_fasta

Links:
http://myhits.isb-sib.ch/cgi-bin/dotlet
http://matthuska.github.io/biasviz/