Bioinformatics

Bioinformatics Lecture 1 Notes Second year student studying for a Biochemistry/Biotechnology degree Content: - Introduction to the course - Annotating sequences - Global/ Pairwise alignments - BLAST output - Substitution/ PAM/ BLOSUM matrix - Log odds - Deriving Matrix scores - Simplifying scores

Bioinformatics Lecture 2 Notes Second year student studying for a Biochemistry/Biotechnology degree Content - Focussed Scoring Methods - Position-Specific Scoring Matrices (PSSM) including examples of matrices & using PSSM with PSI-BLAST - Pseudocounts - Protein domains and Functional sites - MSA ClustalO Output - PROSITE

Bioinformatics Lecture 4 Notes Second year student studying for a Biochemistry/Biotechnology degree Content - Fold prediction - Prediction by Homology - Phyre - Phylogenetic trees - Tree building programs: Distance based method, Bootstrapping, Maximum Parsimony.

Bioinformatics module Lecture 3 For a Second year student studying a Biochemistry/Biotechnology degree Content - Hidden Markov Models – HMM - Protein Structure Prediction - Intro to Secondary Structure Prediction - Jpred Algorithm - 2 types of networks (Sequence to structure, Structure to structure)