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Bioinformatics is an interdisciplinary field of science for analyzing and interpreting vast biological data using computational techniques. In this course, we aim to give a walkthrough of the major aspects of bioinformatics such as the development of databases, computationally derived hypothesis, algorithms, and computer-aided drug design. During the first section of the course, we will focus on DNA and protein sequence databases and analysis, secondary structures and 3D structural analysis. The second section will be devoted to applications such as prediction of protein structure, folding rates, stability upon mutation, and intermolecular interactions. Further, we will cover computer-aided drug design using docking and QSAR studies. This course is designed to nurture skills and knowledge required for aspiring students, young biologists and research scholars to develop algorithms and tools in bioinformatics.

Week

Topics

1.

Introduction, DNA sequence analysis, DNA Databases

2.

Protein structure and function, protein sequence databases, sequence alignment

3.

PAM matrix, Global and local alignment, BLAST: features and scores

4.

Multiple sequence alignment, Conservation score, phylogenetic trees

5.

Protein sequence analysis, hydrophobicity profiles, non-redundant datasets

6.

Protein secondary structures, Ramachandran plot, propensity, secondary structure prediction

7.

Protein tertiary structure, Protein Data Bank, visualization tools, structural classification, contact maps

8.

Protein structural analysis, protein structure prediction

9.

Finite Volume Method (FVM) - I

10.

Protein stability, energetic contributions, database, stabilizing residues, stability upon mutations

11.

Computer aided drug design, docking, screening, QSAR

12.

Development of algorithms, awk programming, machine learning techniques, applications using WEKA

 Basic knowledge of Biology and any computer language would be helpful


•    M. Michael Gromiha, Protein Bioinformatics: From Sequence to Function, Academic Press, 2010
•    D.E. Krane and M.L. Raymer, Fundamental concepts of bioinformatics, Pearson Education Inc. 2006


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