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Sem2Portion-Bioinformatics and Biostatistics

The document outlines a Semester II course on Bioinformatics and Biostatistics, detailing course outcomes and topics covered in each unit. Key areas include practical training in bioinformatic methods, multiple sequence alignment, and statistical concepts relevant to biological studies. The course also includes references for further reading on bioinformatics and statistical methods.

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11 views2 pages

Sem2Portion-Bioinformatics and Biostatistics

The document outlines a Semester II course on Bioinformatics and Biostatistics, detailing course outcomes and topics covered in each unit. Key areas include practical training in bioinformatic methods, multiple sequence alignment, and statistical concepts relevant to biological studies. The course also includes references for further reading on bioinformatics and statistical methods.

Uploaded by

pseudo.appacc
Copyright
© © All Rights Reserved
We take content rights seriously. If you suspect this is your content, claim it here.
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Semester II

Course I - Bioinformatics and Biostatistics Credit 4

Course Outcomes:
On successful completion of the course the learner would demonstrate and explain the understanding of
the following:
CO 1: practical training in bioinformatic methods including accessing major public sequence databases,
use of different computational tools to find sequences, analysis of protein and nucleic acid sequences by
various software packages.
Unit Topics Credit No of
Lectures
Bioinformatics basics: Computers in biology and medicine;
Unit I Introduction to Unix and Linux systems and basic commands;
Bioinformatics Biological XML DTD’s; databases and search tools: biological
background for sequence analysis, NCBI- publicly available
tools; resources at EBI; DNA sequence analysis: gene bank
15
sequence database; submitting DNA sequences to databases,
pairwise alignment techniques: BLAST and FASTA, motif
discovery and gene prediction; local structural variants of DNA,
their relevance in molecular level processes, and their
identification; assembly of data from genome sequencing
Unit II Multiple sequence alignment: CLUSTALW and CLUSTALX for
Bioinformatics multiple sequence alignment, submitting DNA protein
sequence to databases: where and how to submit, SEQUIN;
submitting aligned sets of sequences, updating submitted
15
sequences; methods of phylogenetic analysis.
Protein modelling: Protein structure and classification
databases; Protein structure visualization; Protein structure
analysis: Secondary, (Chou Fasman algorithm, GOR 4
algorithm, Tertiary (Homology modelling, Threading, Ab initio)
Unit III Introduction and scope of statistics in biological studies and
Biostatistics basic concepts. Collection of data, by different sampling
methods: Simple random sampling, stratified random sampling
and systematic sampling and non-random sampling.
Measures of central tendency; Mean, Median and Mode.
15
Measures of Dispersion: Variance/ standard deviation,
coefficient of variation and standard error. Confidence limits for
mean and proportion. Probability and Basic concepts: Normal
and binomial distribution. Correlation and regression analysis
for a bivariate data: Scatter diagram
Unit IV Test of Hypothesis: Null hypothesis, alternate hypothesis, test
Biostatistics statistics, Type I and Type II errors, level of significance and
critical region. Z test: for a single sample, two samples, t-test
a single sample, two samples and testing the significance of 15
the correlation. Coefficient: t paired test, Chi-square (x2 test):
As a goodness of fit and in 2x2 contingency test

21
References:
1. Lesk, A. M. (2002). Introduction to Bioinformatics. Oxford: Oxford University Press.
2. Mount, D. W. (2001). Bioinformatics: Sequence and Genome Analysis. Cold Spring Harbor, NY:
Cold
Spring Harbor Laboratory Press.
3. Baxevanis, A. D., & Ouellette, B. F. (2001). Bioinformatics: a Practical Guide to the Analysis of
Genes and Proteins. New York: Wiley-Interscience.
4. Pevsner, J. (2015). Bioinformatics and Functional Genomics. Hoboken, NJ.: Wiley-Blackwell.
5. Bourne, P. E., & Gu, J. (2009). Structural Bioinformatics. Hoboken, NJ: Wiley-Liss.
6. Lesk, A. M. (2004). Introduction to Protein Science: Architecture, Function, and Genomics. Oxford:
Oxford University Press.
7. S. P. Gupta, Statistical Methods, (45th Revised Edition), Publisher SCHAND
8. William G. Cochran, Sampling Techniques (3th Edition), Wiley and sons
9. Boris V. Gnedenko, Theory of Probability (6th Edition), CRC Press, 13-May-1998
10. Oscar Kempthorne, Klaus Hinkelmann, Design and Analysis of Experiments, Volume1:
Introduction
to Experimental Design, 2nd Edition, ISBN: 978-0-471-72756-9 December 2007
11. Acheson Johnston Duncan, Quality Control and Industrial Statistics (5th Edition), Irwin; 5 edition
January 1, 1986
12. BK Mahajan, Methods in Biostatistics (7th Edition), Published December 1st 2008 by JP Medical
Ltd

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