Introduction to Bioinformatics

Paper Code: 
MBL 325 B
Credits: 
5
Contact Hours: 
75
Objective: 

To get introduced to the basic concepts of Bioinformatics and its significance in Biological data analysis.

Overview about types and Biological data and database search tools.

Explain about the methods to characterise and manage the different types of Biological data.

Classify different types of Biological Databases.

Explain about the concept of pairwise sequence alignment , algorithms and tools for pairwise alignment

ourse Outcomes (COs):

Course

Learning outcome (at course level)

Learning and teaching strategies

Assessment Strategies

Paper Code

Paper Title

 

MBL 325 B

 

Introduction to Bioinformatics

Upon completion of the course students will be able to

CO 74 B: To get introduced to the basic concepts of Bioinformatics and its significance in Biological data analysis

CO 75 B: Overview about types and Biological data and database search tools

CO 76 B: Explain about the methods to characterise and manage the different types of Biological data.

CO 77 B: Classify different types of Biological Databases

CO 78 B: Explain about the concept of pairwise sequence alignment , algorithms and tools for pairwise alignmentmethods of taxonomy .

Approach in teaching:

Interactive Lectures, Discussion, Tutorials, Reading assignments, Demonstration, Team teaching

 

Learning activities for the students:

Self-learning assignments, Effective questions, Seminar presentation, Giving tasks

 

Class test, Semester end examinations, Quiz, Solving problems in tutorials, Assignments, Presentation

 

 
16.00
Unit I: 
Introduction

Definition, History and Application areas of Bioinformatics. Major Information Resources: NCBI, EBI, ExPasy, TIGR, JGI, DDBJ Biological Databases: Primary & Secondary; Structure Databases, Specialized Databases, Chemical Databases, Entrez and SRS, Sequin & Bankit.

12.00
Unit II: 
File Formats in Bioinformatics

Genbank, EMBL, Swissprot/Uniprot, PDB, Clustal, MSF, GCG, FASTA etc.

17.00
Unit III: 
Sequence Similarity Searching

Basics of sequence alignment, Local and Global Sequence Alignment, similarity, Identity, homology, Sensitivity/Selectivity, Scoring System & Substitution Matrices: Distance and Similarity matrices, Identity Matrices, PAM & BLOSUM matrices & their Derivation

16.00
Unit IV: 
Similarity Searching Tools

BLAST and FASTA, Theory and Algorithms, variants of BLAST and FASTA, PSI & PHI Blast, Statistical Significance. Sequence Pattern and Profiles: Concepts of motif, pattern and profile. Profile construction and its application in Bioinformatics.

14.00
Unit V: 
Tools for DNA & Protein Sequence Analysis

EMBOSS, PHYLIP, Mega2, CLustalX/W etc. Tools at NCBI, EBI, DDBJ, ExPasy

ESSENTIAL READINGS: 

1. Claverie and Notredame. “Bioinformatics - A Beginners Guide”. Wiley-Dreamtech India Pvt Ltd, 2003.

 2. T.K Attwood & D.J Parry-Smith. Delhi. “Introduction to Bioinformatics”. Pearson Education (Singapore) Pte.Ltd., 2001.

 3. A.D Baxevanis & Ouellettee, B., F. F. “Bioinformatics: A Practical Guide to the analysis of Genes and Proteins” 2nd Edition, John Wiley & Sons, Inc. Publications, New York, 2002.

4. David W. Mount. “Bioinformatics: Sequence and Genome Analysis” , New York, Cold Spring Harbor Laboratory Press, 2004.

REFERENCES: 

1. Dan E Krane, Elaine Nicpon Marieb, Michaeel L Raymer. “Fundamental Concepts of Bioinformatics”. Indian Edition, Benjamin Cummings Publication

 2. David W Mount. “Bioinformatics: Sequence and Genome Analysis” Indian Edition. Cold Spring Harbour Laboratory Press. 2004.

 3. Arthur M Lesk. “Introduction to Bioinformatics”. Oxford University Press

4. Dan E. Krane and Michael L. Raymer. “Fundamental concepts of Bioinformatics” Low Priced Edition, Pearson Education.

5. A.D Davison, D.B. Page & G.A. Petsko “Current Protocols in Bioinformatics” by Baxevanis, New York, John Wiley & Sons Inc., 2004.

Academic Year: 
2019-2020
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