BIOINFORMATICS
Course
Contents:
Unit 1: Foundations to Bioinformatics
Foundations to bioinformatics – Evolution, similar macromolecular components, constancy of gene number and core proteome in closely related organisms
Bioinformatics data – nucleic acid sequence, protein sequence, protein structure, genomic, proteomic and metabolomic information
Bioinformatics databases – types, design, file formats, access tools with examples
Bioinformatics tools and Resources – free online tools, downloadable free tools, software packages, internet,
Bioinformatics books and Journals, Bioinformatics web-portals
Unit 2: Comparison methods in bioinformatics
Dot-matrix comparison
Basics of sequence alignment - match, mismatch, gaps, scoring alignments, gap penalty, protein vs DNA alignment
Pairwise alignment algorithms – Needleman and Wunch algorithm, Smith Watermann algorithm
Multiple sequence alignment algorithms – progressive alignment algorithms, Iterative alignment algorithms
Pair wise alignment based heuristic algorithms - Blast algorithm, FASTA algorithm
Multiple sequence alignment based databases searching: Consensus sequence, patterns, profiles
PAM and BLOSUM Matrices
Unit – 3: Genomic and proteomic Bioinformatics
Bioinformatics for genome sequencing
EST Clustering and analyses
Finding genes in prokaryotic and eukaryotic genomes: open reading frames, contents, signals
Regulatory sequence analysis: core and distal promoter sequences, transcription factor binding sites
Bioinformatics for Genome maps and markers
Bioinformatics for understanding Genome variation
Protein structure prediction and classification
Bioinformatics in support of Proteomic research
Unit - 4: Applications of Bioinformatics
Medical application of Bioinformatics – disease genes, drug targets, pharmacogenomics, drug designing
Structural biology - Homology modeling
Bioinformatics for micro array designing and transcriptional profiling
Bioinformatics for metabolic reconstruction
Bioinformatics for phylogenetic analysis