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Bioinformatics Algorithms

3 Credit Hour Course

Prerequisite:   None

Introduction; Molecular biology basics: DNA, RNA, genes, and proteins; Restriction mapping algorithm; Motif in DNA sequences, motif finding algorithms; Genome rearrangements, sorting by reversals and breakpoints; DNA sequence alignments; Gene prediction; Space-efficient sequence alignments, sub-quadratic alignment; DNA sequencing, genome sequencing, protein sequencing, spectrum graphs; Combinatorial pattern matching: Exact pattern matching, heuristic similarity search algorithms, approximate string matching, BLAST, FASTA; Clustering: Microarrays, hierarchical clustering, K-means clustering, corrupted cliques problem, CAST clustering algorithm; Evolutionary trees.

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