Bioinformatics BT 5th Sem Syllabus for VTU BE 2017 Scheme

Bioinformatics detail syllabus for Biotechnology (Bt), 2017 scheme is taken from VTU official website and presented for VTU students. The course code (17BT54), and for exam duration, Teaching Hr/week, Practical Hr/week, Total Marks, internal marks, theory marks, duration and credits do visit complete sem subjects post given below.

For all other bt 5th sem syllabus for be 2017 scheme vtu you can visit BT 5th Sem syllabus for BE 2017 Scheme VTU Subjects. The detail syllabus for bioinformatics is as follows.

Course Objectives:

This course will enable students to

• Learn fundamentals of chemical calculations and material and energy balance.
• Discuss the material balance aspects involving chemical reactions and without chemical reactions.
• Highlight the energy balance and material balance for the development of bioprocess technology

Module 1

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Module 2

PHYLOGENETIC ANALYSIS AND PREDICTIVE METHODS: Introduction to Phylogenetic analysis, rooted and unrooted trees, Elements of phylogenetic Models, Phylogenetic Data Analysis: Alignment, Substitution Model Building, Tree Building, and Tree Evaluation, Tree – Building Methods-Distance based and character based methods, Evaluating Trees and Data- Boot strapping (parametric and non-parametric), Phylogenetic softwares (CLUSTALW, PHYLIP etc), Conceptual numericals. Predictive Methods using Nucleotide sequences: Framework, Masking repetitive DNA, Database searches, Codon Bias Detection, Detecting Functional Sites in the DNA (promoters, transcription factor binding sites, translation initiation sites), Integrated Gene Parsing, finding RNA Genes, Web based tools (GENSCAN, GRAIL, GENEFINDER). Predictive Methods using Protein sequences: Protein Identity based on composition, Physical properties Based on sequence, secondary structure and folding classes, specialized structures or
features, tertiary structure. Related web based software (JPRED, PROSEC, NNPREDICT, SOPMA, DSSP, STRIDE).

Module 3

GENOME BIOINFORMATICS:
Sequencing methods, Bioinformatics tools and automation in Genome Sequencing, analysis of raw genome sequence data, Utility of EST database in sequencing, Bioinformatics in detection of Polymorphisms, SNPs and their relevance, Bioinformatics tools in microarray data analysis. Tools for comparative genomics: BLAST2, AVID, Vista, MUMmer, COG, VOG. Qualitative discussions on Machine Learning Tools (Artificial Intelligence, Genetic algorithm and neural networks).

Module 4

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Module 5

PLASMID MAPPING, PRIMER DESIGN AND INSILICO DRUG DESIGN:
Restriction mapping, Utilities, DNA strider, MacVector and OMIGA, gene construction KIT, Vector NTI, Web based tools (MAP, REBASE); Primer design – need for tools, Primer design programs and software (PRIME3). Molecular modeling in drug discovery, deriving bioactive conformations, molecular docking, quantitative structure-activity relationship (QSAR), deriving the Pharmacophoric Pattern, Receptor Mapping, Estimating Biological Activities, Ligand – Receptor Interactions: Docking softwares (AUTODOCK, HEX) Calculation of Molecular Properties, Energy Calculations (no derivation). Conceptual numericals.

Course Outcomes:

After studying this course, students will be able to:

• Know the relevant online resources, databases and software tools
• Understand the underlying concepts of Bioinformatics
• Apply alignment and modelling tools
• Analyse biological data using phylogenetic, predictive and comparative methods
• Design in silico various biomolecules

Reference Books:

1. Computational methods for macromolecular sequence analysis: R F Doolittle. Acad. Press.
2. Computational methods in Molecular Biology. S.L.Salzberg, D B Searls, S Kasif, Elsevier.
3. Bioinformatics – Methods And Applications: Genomics, Proteomics And Drug
4. Discovery by S C Rastogi, Nmendiratta &P Rastogi, PHI.
5. The Molecular Modeling Perspective in Drug Design by N Claude Cohen, Academic Press.
6. Analytical Tools for DNA, Genes & Genomes: By Arseni Markoff, New Age.
7. Introduction to Bioinformatics by Anna Tramontano, Taylor & Francis
8. Bioinformatics by Des Higgins & Willie Taylor Oxford.

Text Books:

1. Bioinformatics by Andreas D Baxevanis. Wiley Interscience.
2. Essentials of Bioinfomatics, Jin Xinog, Texas A & M University, Cambridge University Press.
3. Bioinformatics: By David W Mount, Cold Spring Harbor.
4. Introduction to Bioinformatics by Arthur Lesk, Iii Edition, Oxford Publications.
5. Structural Bioinformatics by Philip E Bourne, John Wiley & Sons.
6. Bioinformatics: Stuart M Brown, Nyu Medical Center, Ny USA.
7. Discovering Genomics, Proteomics & Bioinformatics by A M Campbell & L J Heyer,Pearson Education.
8. Fundamental Concepts Of Bioinformatics by D E Krane & M L Raymer, Pearson

For detail syllabus of all other subjects of BE Bt, 2017 scheme do visit Biotech 5th Sem syllabus for 2017 scheme.

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