Course Details
Subject {L-T-P / C} : LS4201 : Bioinformatics { 3-0-0 / 3}
Subject Nature : Theory
Coordinator : Prof. Bibekanand Mallick
Syllabus
Computational Biology and Bioinformatics, Biological data and its characteristics, Data formats. Microarray and NGS data. Databases – Primary (NCBI, EMBL, DDBJ) and Secondary (UniGene), Nucleotide sequence databases, Protein sequence databases (SwissProt/TrEMBL, PIR), Sequence motif databases (Pfam, PROSITE), Structure databases (PDB, SCOP, CATH), Gene annotation: Principles and methods. Sequence alignment and database similarity searching, Scoring matrix, BLAST series, FASTA. Pairwise sequence alignments and multiple sequence alignments. Global Alignments – Needleman-Wunsch algorithm, Local Alignments – Smith-Waterman algorithm. Multiple sequence alignments. Phylogenetic markers and molecular phylogeny. Comparative genomics and gene prediction tools. Prediction of the secondary and tertiary structure of proteins, Comparative modelling and docking. Molecular viewers (Cn3D, Rasmol, Swiss-PDB viewer). Overview of programming languages in bioinformatics. Basic commands of UNIX.
Course Objectives
- To make students acquainted with basic principles as well as latest developments in the area of bioinformatics.
Course Outcomes
CO 1: Help the students to get acquainted with the aims and scope of bioinformatics in biology and other allied branches of biological sciences <br />CO 2: Students will gain knowledge on databases and algorithms/tools for biological data mining and analysis, molecular visualizations, biomolecular interaction studies, computer-aided drug design, etc. <br />CO 3: Enable students to analyze all sorts of biological data including NGS data and provide solutions to bioindustrial problems/challenges using modern bioinformatic tools for gene annotation, functional genomics, proteomics, molecular modelling, molecular docking, etc. <br />CO 4: To train the students and impart problem-solving skills, including the ability to develop bioinformatic tools, algorithms, and databases for use in industries and academics for a better understanding of a biological process or events and aid in discovering new strategies for diagnosis or prognosis of diseases. <br />CO 5: Demonstrate comprehension of basic concepts of bioinformatics as a result of the intersection of biology and information sciences
Essential Reading
- Zhumur Ghosh & Bibekanand Mallick, Bioinformatics: Principles and Applications, 1st edition (2008), Oxford University Press , ISBN: 9780195692303
- David W Mount, Bioinformatics: Sequence and Genome Analysis, CBS Publishers , ISBN-8123912412
Supplementary Reading
- Arthur M Lesk, Introduction to Bioinformatics, 2nd edition (2005), Oxford University Press , ISBN-199277877
- Buehler Lukar K (Ed.),, Bioinformatics Basics: Applications in biological science and medicine, 2nd edition (2005), Taylor and Francis , ISBN-9780849312830