From this paper students can learn various topics such as introduction to bioinformatics, protein sequence databases. sequence alignment, scoring matrices, BLAST. Structural databases; Protein Data bank (PDB), Nucleic Acid Data Bank (NDB), Molecular modeling Data Bank (MMDB). Homology modeling, Secondary structure, three-dimensional structure prediction, protein folding and functional sites, protein folding classes. Human Genome project; GenBank, EMBL Nucleotide sequence databank, DNA Data Bank of Japan (DDBJ), database formats. Recombinant DNA technology, Polymerase chain reaction, application of BioEdit. Genome information and special features, coding sequences (CDS), untranslated regions (UTR’s), cDNA library, expressed sequence tags (EST). Approach to gene identification; Internet resources for gene identification, Construction of maps. Nucleic acids, ribose-ring puckering, RNA folding, conformational study, protein-ligand interactions, biophysical aspects of proteins and nucleic acids. Introduction, molecular mechanics, force field, potential energy functions, energy minimization, single point calculations, full-geometry optimization, conformational search, docking, molecular dynamics simulations, molecular modeling packages. Concept of microarrays; spotted arrays, oligonucleotide arrays, Applications of microarray technology. Mass spectroscopy for protein analysis, MALDI-TOF, Electrospray ionization (EST), Tandem mass spectroscopy (MS/MS) analysis; tryptic digestion and peptide fingerprinting (PMF), Protein Micro array in protein expression, profiling and diagnostics, drug target discovery Evolution, elements of phylogeny, methods of phylogenetic analysis, phylogenetic tree of life, comparison of genetic sequence of organisms, phylogenetic analysis tools.
- Teacher: Kailas Sonawane Biochem