THE OXFORD COLLEGE OF ENGINEERING

Hosur road , Bommanahalli, Bangalore-560 068

Department of Engineering Mathematics

LESSON PLAN
Faculty Name
G PadmaSudha
Academic Year 2012-2013
Course/Branch MTECH/BIOTechnology
Semester
I SEM
Subject Title
Statistical Methods for Bioinformatics
Subject Code
10BI22
Objective of
To get the basic knowledge of Statistics in field of Bioinformatics
Course
engineering
PREREQUISITE Basic Mathematics, Statistics, Permutations & combinations
Uni
t
I

II

III

Date
29/09/20
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30/09/20
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01/10/20
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01/10/20
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04/10/20
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07/10/20
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10/10/20
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12/10/20
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13/10/20
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14/10/20
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15/10/20
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17/10/20
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20/10/20
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21/10/20
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21/10/20
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22/10/20

Perio
d
2nd

TOPIC
UNIT I-BASICS OF STATISTICS
Descriptive statistics-frequency distributions

Books Referred
& Pages
Warren J. &
Gregory Grant,

Data presentation

3rd

Diagrammatic representation of frequency

distribution

1st

Histogram, Frequency polygon, frequency curve

4th

Measures of central tendency

5th

Inferential Statistics

3rd

UNIT II-FREQUENCY DISTIBUTION FUNCTIONS

Binomial Distribution, Poisson Distribution

1st

Warren J. &
Gregory Grant

Uniform Distribution

4th

p. no. 80-105

Normal distribution

5th

Distribution functions of more than one RV

2nd

Joint Distributions

7th

Conditional Distributions

3rd

Marginal Distribution and Independent RV

3rd

UNIT III- STATISTICAL INFERENCE

and Bayesian methods

1st

S P Gupta

Classical Estimation Methods

1st

p.no.76-89

Classical Hypothesis testing

4th

Classical

p.no. 9-34

IV

VI

VII

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28/10/20
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28/10/20
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02/11/20
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03/11/20
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04/11/20
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04/11/20
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08/11/20
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09/11/20
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15/11/20
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17/11/20
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18/11/20
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19/11/20
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21/11/20
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22/11/20
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23/11/20
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25/11/20
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26/11/20
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28/11/20
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30/11/20
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01/12/20
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02/12/20
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03/12/20
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05/12/20
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08/12/20
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Likelihood ratios few examples

3rd

Hypothesis testing using Maximum as Test Statistics

5th

UNIT IV-STOCHASTIC PROCESSES

Introduction to Random Process

3rd

S P Gupta
Warren J.

st

Poisson and Binomial distribution

p.no.89-166
&
115-134

Poisson and Gamma distribution

4th

Pure Birth Test

5th

Markov Chains

1st

Transition Probabilities TPM

1st

Absorbing non-absorbing states

6th

Criteria for Good Estimators

3rd

UNIT-V ESTIMATION AND HYPOTHESIS TESTING

THEORY Introduction

4th

Gibson & S.V. Muse

Maximum Likelihood Estimation

1st

p.no. 356-390

Multiple Regression

1st

Hypothesis testing

2nd

Confidence limits, t-distribution

1st

2 -Test

3rd

ANNOVA - One Way Classification

3rd

Two Way Classification

1st

UNIT VI ANALYSIS OF DNA SEQUENCES

Analysis of single DNA sequence

4th

Warren J. &
Gregory Grant

Analysis of pattern.

5th

p.no.185-205

Frequency comparison, Sequence alignment

3rd

Alignment algorithms

1st

Protein sequences & Substitution matrices

4th

UNIT VII STATISTICAL APPROACH FOR

SEQUENCE ALIGNMENT & SEQUQNCE SEARCH
Comparison of two Aligned sequences

5th

Gibson & S.V. Muse

VIII

IX

09/12/20 Query sequence against a database

11
10/12/20 Minimum Significance lengths
11
12/12/20 Gapped BLAST and PSI-BLAST
11
18/12/20 UNIT-VIII HIDDEN MORKOV MODELS:
Introduction, Algorithms
11
20/12/20 Forward and Backward algorithm
11
21/12/20 Verterbi and estimation Algorithms
11
25/12/20 Applications of HMM. C
11
27/12/20 UNIT-IX CASE STUDY IN PROTEOMIC MASSSPECTROMETRY: Coronary artery disease data
11
30/12/20 Phenotypic characterization of Yersinia pestis,
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30/12/20 Detecting lineage-specific evolution of DNA
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01/01/20 UNIT-X Evolutionary Models of Nucleotide substitution
12
03/01/20 Discrete Time Models Phylogenic tree estimation
11
04/01/20 Tree building methods
12

Signature of the Faculty

HOD

3rd

P.no.109

1st
4th
5th

e-Book

3rd
1st
4th
5th

T. Hastie, R.
Tibsirani

6th

p.no 68

3rd
1st

R. Gentlema

4th

p.no. 345

5th