LS4103 : Bioinformatics (Autumn 2014) | Academic Portal of IISER Kolkata

Details of LS4103 (Autumn 2014)

Level: 4

Type: Theory

Credits: 3.0

Course Code	Course Name	Instructor(s)
LS4103	Bioinformatics	Anirban Banerjee, Shree Prakash Pandey

Syllabus
DNA and Amino Acid Sequences, Feature extraction, Alignment and Inferences Exploration of biological features; exploration of quantitative characteristics; alignment algorithms (Needleman-Wunsch, Smith-Waterman, BLAST); algorithms for determination of higher order structure Evolutionary Inference from sequence data and Estimating rates of evolution: Jukes and Cantor model; Kimura's two-parameter model; Tajima and Nei's method Bioinformatics and Approaches to Omics Analysis: Exploration of trends in high-throughput data using Principal Component Analysis (PCA) and hierarchical clustering; differential gene expression using moderated t-tests and Receiver Operating Characteristic (ROC); Gene set (pathway) enrichment analysis; exploration of correlation gene networks Methods of Systems Biological Inference

Syllabus

DNA and Amino Acid Sequences, Feature extraction, Alignment and Inferences
Exploration of biological features; exploration of quantitative characteristics; alignment algorithms (Needleman-Wunsch, Smith-Waterman, BLAST); algorithms for determination of higher order structure
Evolutionary Inference from sequence data and Estimating rates of evolution:
Jukes and Cantor model; Kimura's two-parameter model; Tajima and Nei's method
Bioinformatics and Approaches to Omics Analysis:
Exploration of trends in high-throughput data using Principal Component Analysis (PCA) and
hierarchical clustering; differential gene expression using moderated t-tests and Receiver
Operating Characteristic (ROC); Gene set (pathway) enrichment analysis; exploration of
correlation gene networks
Methods of Systems Biological Inference

References
by Durbin, Eddy, Krogh, Mitchison , Biological Sequence analysis, Edition 2, Cambridge University Press (1998) by Dan Graur and Wen-Hsiung Li , Fundamentals of Molecular Evolution, Edition 2, Sinauer (2000) David W. Mount, Bioinformatics: Sequence and Genome Analysis, Edition 4, Cold Spring Laboratory Press (2004)

Sl. No.	Programme	Semester No	Course Choice
1	IP	1	Not Allowed
2	IP	3	Elective
3	MR	1	Not Allowed
4	MR	3	Not Allowed
5	MS	7	Core
6	RS	1	Elective
7	RS	2	Elective