(BT05084) BIOINFORMATICS

Unit I: Introduction to Bioinformatics
Scope of Bioinformatics, Elementary commands and protocols, ftp, telnet, http.
Primer on information theory.
UNIT-II: Introduction to Homology
Introduction to Homology (with special mention to Charles Darwin, Sir Richard Owen,
Willie Henning, Alfred Russel Wallace).
Unit III: Special Topics In Bioinformatics
DNA mapping and sequencing, Map alignment, Large scale sequencing methods
Shotgun and Sanger method.
Unit IV : Sequencing Alignment and Dynamic Programming
Heuristic Alignment algorithms. Global sequence alignments-Neddleman-Wunsch
Algorithm Smith-Waterman Algorithm-Local sequence alignments (Amino acid substitution
Matrices (PAM, BLOSUM).
Unit V: Primary Database and their Use
Introduction to Biological databases, Organization and management of databases.
Searching and retrieval of information from the World Wide Web. Structure databases-
PDB (Protein Data Bank), Molecular Modeling Databases (MMDB). Primary
Databases NCBL,EMBL, DDBJ.
UNIT-VI: Secondary Databases
Introduction to Secondary Databases Organization and management of databases
Swissprot, PIR,KEGG
UNIT-VII: Bio Chemical Data Bases
Introduction to BioChemical databases-organization and Management of databases.
KEGG, EXGESCY, BRENDA, WIT.
Unit VIII: Evolutionary Trees and Phylogeny
Multiple sequence alignment and phylogenetic analysis.
TEXT BOOKS:
1. Bioinformatics Basics. Applications in Biological Science and Medicine by
Hooman H. Rashidi and Lukas K.Buehler CAC Press 2000.
2. Algorithms on Strings Trees and Sequences Dan Gusfiled. Cambridge University
Press 1997.
REFERENCES:
1. Bioinformatics: A Machine Learning Approach P. Baldi. S. Brunak, MIT Press
1988.
2. Bioinformatics. David Mount, 2000. CSH Publications
3. Developing Bioinformatics Skills. Cynthia Gibbas & Per Jamberk
4. Genomics and Proteomics-Functional and Computational aspects. Springer
Publications. Editior-Sandor Suhai.
5. Bioinformatics- Methods and Protocols-Human Press. Stephen Misener,
Stephen A. Krawetz.
6. Computational Biochemistry – C.Stan ,TSAI WILEY Publications.
7. Bioinformatics – A Practical guide to the Analysis of Genes and Proteins –
ANDREAS D.BAXEVANIS, B.F. FRANCIS OUELLETTE.
8. Bioinformatics – Principles and Applications – Harshawardhan P.Bal TATA
MEGRAW HILL.
9. BLAST : An Essential guide Ian Korf, O’Reilly publishers.
10. Bioinformatics Computer skills Cynthia Gibas O’Reille publishers.