Basic Bioinformatics
Bioinformatics has been the subject which has become the trend in today�s world of science with new emerging concepts which incorporate theories and techniques in biological analysis. During the process, the biological experts tend to collect huge amount of data post the various experiments.
Course Goal
The Course focuses upon:
- The main principles of bioinformatic analysis
- Types of biological information and their corresponding databases
- Processing, storage, analysis and modeling of many types of biological data
- Provide a valuable insights into the understanding of complex biological systems and their quantitative data.
- Positively impact research projects in the corporate and academic sectors
- Effectively communicate and present bioinformatics analysis to multidisciplinary project teams
Course Curriculum
Introduction to bioinformatics
- Bioinformatics and its relation with molecular biology
- Applications of bioinformatics
- Open access bibliographic resources and literature databases:
- Open access bibliographic resources related to life sciences viz., Pubmed, Pubmed central, Sciencedirect, Biomed Central, Public library of sciences (PLos)
Module: 1 Sequences Databases
- Formats, querying and retrieval
- Nucleic acid sequence databases: GenBank, EMBL, DDBJ
- Protein sequence database: Uniprot-KB: SWISS-PROT, TrEMBL, PIR-PSD
- Repositories for high throughput genomic sequences: EST, STS GSS etc
- Viral genomes
- Genome databases at NCBI, EBI, TIGR, SANGER
- Structure classification database: CATH, SCOP, FSSP
- Repositories for high throughput genomic sequences: EST, STS GSS etc
- Viral genomes
- Bacterial and archeal genome
- 3D structure database: PDB, NDB
- Chemical structure database: Pubchem, Drugbank, Chemspider etc
Module: 2 Sequence Analysis
- File formats:
- Various file formats for bio-molecular sequences: GenBank, FASTA, GCG, MSF et
- c Basic concepts:
- Sequence similarity, identity and homology, definitions of homologues, orthologues,paralogues,Gap and Gap Penalties
- Pairwise sequence alignments:
- Basic concepts of sequence alignment: local and global alignments, Dot-matrix analysis
- Needleman Wunsch and Smith and Waterman algorithms
- Sequence based searches-BLAST and FASTA
- Multiple sequence alignments (MSA):
- Algorithm of CLUSTALW and PileUp and their application
- Concept of dendrogram and its interpretation
- Taxonomy and phylogeny:
- Basic concepts in systematics, taxonomy and phylogeny
- Molecular evolution; nature of data used in Taxonomy and Phylogeny, Definition and description of phylogenetic trees and various types of trees.
- Protein and nucleic acid properties:
- Computation of various parameters using proteomics tools at the ExPASy server and EMBOSS
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