UNIT-I
Fundamentals of Bioinformatics and
Information Technology :
Introduction to bioinformatics,experimental sources of biological data
fundamentals of molecular biology available databases operating system,
inclusing windows and Unix networks-including the intranets and the Internet.
Analytical science and Bioinformatics : High throughput sequencing,
experimental determination of protein structures, Gene expression
monitoring, proteomics, metabiomics.
UNIT-II
Protein Information resources : Introduction, biological
databases, primary sequence databases,composite protein sequence database,
secondary databases, composite protein pattern databases,
structure classification databases, web addresses.
Genome information resources : Introduction, DNA sequence
databases, specialised genomic resources.
DNA Sequence analysis : Introduction, why analyse
DNA, Gene structure and DNA sequences, features of DNA sequence analysis,
issues in the interpretation of EST searches, two approaches to gene
hunting,the expression profile of a cell, cDNA libraries and ESTs, different approaches
to EST analysis, effects of EST data on DNA databases.
UNIT-III
Pairwise alignment techniques : Introduction, database
searching, alphabets and complexity, algorithms and programs, comparing
two sequences a simple case, sub-sequences, identity and similarity, the
dotplot,local and global similarity, global alignment the needleman and wunsch
algorithm, local alignment the smith waterman algorithm, dynamic
programming, pairwise database searching.
Multiple sequence alignment : Introduction, the goal of multiple
sequence alignment, multiple sequence alignment a definition, the
consensus, computational complexity, manual methods, simultaneous
methods,progressive methods, database of multiple alignment, searching
databases with multiple alignments.
Secondary database searching : Introduction, why bother
with secondary database searches, what is a secondary database.
UNIT-IV
Bioinformatics tools : Visualisation of sequence
data, sequence alignment, homology searching,inclusing BLAST, gene expression
informatics, introduction to gene finding.
Building a sequence search protocol : Introduction, a practical
approach, when to believe a result,structural and functional interpretation.
Analysis packages : Introduction, what’s in an
analysis package, commerical databases, commerical software, comprehensive
packages, packages specialising in DNA analysis, intranet packages,
internet packages.
UNIT-V
Applications and commercial aspects
of Bioinformatics : Drug
discovery, genetic basis of disease,personalised medicine and gene-based
diagnostics, legal, ethical and commercial ramifications
of bioinformatics.
Perl Programming : Data manipulation, file
maintenance, pipelining, packaging and interfacing system facilities.
Macromolecular Modelling and
Chemoinformatics :
Acquisition of chemical information, including molecular structure from
databases visualisation of molecules simulation of molecular
interaction introduction to industry standard modelling software.
BOOKS:
1. Attwood TK & Parry-smith DJ
“Introduction to Bioinformatics” 2001, Pearson Education Asia.
2. Setup Joao & Meidanis Joa
“Introduction to computational Molecular Biology” PWS Publishing
Company, 1997 (An international
Thouson publishing company).
8. Andreas D. Baxevan’s & B.F.
Francis Quellette, “Bio Informatics: A Practical guide to the analysis
of Genes & Proteins”, Second
edition 2001, A John wiley & Sons.
9. Martin Tompa Lechre notes on
Biological sequence Analysis, Department of Computer Science &
Engineering, university of
wasnington, seattle USA http:/www.cs.washington.edu/education/ courses
/ 527/ oowi/
10. Jean Michael “Bioinformatics : A
beginner’s Guide”, Wiley India.
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