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MSRIT Bioinformatics Sem 5
No Units Titles Sub Titles Chapters
1 Unit 1 Introduction Introduction to bioinformatics, Goals, Scope, Applications, Limitations, Introduction to databases, types of databases, biological databases, pitfalls of biological databases, Overview of Bioinformatics resources on the web, Homologs, Paralogs, Orthologs, Introduction to: bioperl, DBMS VIEW CHAPTERS
2 Unit 2 Databases Primary and Secondary Databases, Nucleotide sequence databases and entry file formats, GenBank/EMBL/DDBJ, Protein sequence database and entry file formats, PIR, UniProtKB, Structure databases & file formats, Protein Data Bank, Molecular Modeling Database, Visualizing structural information softwares, Derived databases- Prosite, Pfam, Recent derived database VIEW CHAPTERS
3 Unit 3 Sequence alignment and database searches Introduction, The evolutionary basis of sequence alignment, Sequence homology, Sequence similarity, Sequence Identity, Alignment strategies- Global and Local Alignment, Alignment algorithms-Dot matrix and Dynamic Programming, Scoring matrices, Statistical significance of Alignments, Database similarity searching, Unique requirements, FASTA, BLAST, Low-Complexity Regions, Multiple Sequence Alignment, Progressive Alignment Methods, Position Specific Scoring Matrices (PSSM), Hidden Markov Models (HMMs) VIEW CHAPTERS
4 Unit 4 Phylogenetic analysis Terminology, Forms of Tree representations, Molecular Phylogenetic Tree Construction, Choice of Molecular markers, Performing MSA, Choosing Substitution Models, Tree construction methods, UPGMA, Neighbor Joining, Maximum Parsimony and Maximum Likelihood, Phylogenetic Tree evaluation, Phylogenetic software, Some simple practical considerations VIEW CHAPTERS
5 Unit 5 Applied bioinformatics Introduction to Homology modeling, Protein structure comparison, Intermolecular and Intramolecular methods, Protein structure classification, SAGE, Metabolomics, KEGG pathway database, primer design tools, and Restriction mapping tools VIEW CHAPTERS
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