Course Details
Subject {L-T-P / C} : BM4705 : Bioinformatics Laboratory { 0-0-2 / 1}
Subject Nature : Practical
Coordinator : Prof. Mukesh Kumar Gupta
Syllabus
Data retrieval from biological databases: MapViewer, ENSEMBLE, OMIM, SNP databases. Retrieval of nucleic acid and protein sequence from biological database (GenBank, EMBL, Uniprot) and their interpretation. Retrieval of protein structure from PDB database and viewing in RASMOL. Nucleic acid and protein sequence analysis (BLAST, EMBOSS). Multiple sequence alignment (CLUSTAL, EMBOSS). Phylogenetic analysis (PHYLLIP). ORF identification, in silico translation and Gene prediction (GeneMark). Secondary structure prediction in nucleic acids (MFOLD) and proteins (Chou-Fasman and GOR methods). Molecular Modeling of tertiary structure of protein (SWISS MODEL, MODELLER). Identifying protein folding (PHYRE). Functional annotation of genes and proteins (GO, DAVID).
Course Objectives
- • To learn basic bioinformatics and computational tools for data mining
- • To learn various softwares for data analysis, including Big Data.
Course Outcomes
• Learn and use bio-algorithms, bio-databases, information retrieval, data mining, file formats, molecular viewer and various bioinformatic softwares.
Essential Reading
- • McEntyre J and Ostll J, The NCBI Handbook, National Centre for Biotechnology Information, Bethesa, USA
- • Claverie JM, Notredame, Bioinformatics for Dummies, John Wiley and Sons. ISBN: 978-0470089859
Supplementary Reading
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