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SATHYABAMA UNIVERSITY (Established under section 3 of UGC Act, 1956) Jeppiaar Nagar, Rajiv Gandhi Road, Chennai 119. SYLLABUS BATCHELOR OF TECHNOLOGY PROGRAMME IN BIOINFORMATICS (8 SEMESTERS) REGULATIONS 2010
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B.Tech. (BIOINFORMATICS)

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Page 1: B.Tech. (BIOINFORMATICS)

SATHYABAMA UNIVERSITY (Established under section 3 of UGC Act, 1956)

Jeppiaar Nagar, Rajiv Gandhi Road, Chennai – 119.

SYLLABUS BATCHELOR OF TECHNOLOGY PROGRAMME

IN

BIOINFORMATICS (8 SEMESTERS)

REGULATIONS 2010

Page 2: B.Tech. (BIOINFORMATICS)
Page 3: B.Tech. (BIOINFORMATICS)

SATHYABAMA UNIVERSITY FACULTY OF BIO ENGINEERING

B.Tech. (BIOINFORMATICS) i REGULATIONS 2010

SATHYABAMA UNIVERSITY

REGULATIONS – 2010

Effective from the academic year 2010-2011 and applicable to the students admitted to the Degree of Bachelor of Engineering / Technology. (Eight Semesters)

Structure of Programme

1.1 Every Programme will have a curriculum with syllabi consisting of theory and practical such as:

(i) General core courses comprising Mathematics, Basic Sciences, Engineering Sciences.

(ii) Core course of Engineering / Technology.

(iii) Elective course for specialization in related fields.

(iv) Workshop practice, Computer Practice, Engineering Graphics, Laboratory Work, Industrial Training, Seminar Presentation, Project Work, Educational Tours, Camps etc.

1.2 Each semester curriculum shall normally have a blend of lecture courses not exceeding 7 and practical courses not exceeding 4.

1.3 The medium of instruction, examinations and project report will be in English.

Duration of the Programme

A student is normally expected to complete the B.E/B.Tech. Programme in 8 semesters but in any case not more than 12 consecutive semesters from the time of commencement of the course (not more than 10 semesters for those who join 3

rd semester under Lateral entry system) The Head of the Department shall

ensure that every teacher imparts instruction as per the number of hours specified in the syllabus and that the teacher teaches the full content of the specified syllabus for the course being taught.

Requirements for Completion of a Semester

A candidate who has fulfilled the following conditions shall be deemed to have satisfied the requirement for completion of a semester.

1.4 He/She secures not less than 90% of overall attendance in that semester.

1.5 Candidates who do not have the requisite attendance for the semester will not be permitted to write the University Exams.

Examinations

The examinations shall normally be conducted between October and December during the odd semesters and between March and May in the even semesters. The maximum marks for each theory and practical course (including the project work and Viva Voce examination in the Eighth Semester) shall be 100 with the following breakup.

Theory Courses

Internal Assessment : 20 Marks

University Exams : 80 Marks

Practical Courses

Internal Assessment : - -

University Exams : 100 Marks

Page 4: B.Tech. (BIOINFORMATICS)

B.Tech. (BIOINFORMATICS) 2 REGULATIONS 2010

SATHYABAMA UNIVERSITY FACULTY OF BIO ENGINEERING

Passing requirements

(i) A candidate who secures not less than 50% of total marks prescribed for the course (For all courses including Theory, Practicals and Project work) with a minimum of 35 marks out of 80 in the University Theory Examinations, shall be declared to have passed in the Examination.

(ii) If a candidate fails to secure a Pass in a particular course, it is mandatory that he/she shall reappear for the examination in that course during the next semester when examination is conducted in that course. However the Internal Assessment marks obtained by the candidate in the first attempt shall be retained and considered valid for all subsequent attempts.

Eligibility for the Award of Degree

A student shall be declared to be eligible for the award of the B.E/B.Tech. degree provided the student has successfully completed the course requirements and has passed all the prescribed examinations in all the 8 semesters within the maximum period specified in clause 2.

Award of Credits and Grades

All assessments of a course will be done on absolute marks basis. However, for the purpose of reporting the performance of a candidate, Letter Grades will be awarded as per the range of total marks (out of 100) obtained by the candidate as given below:

RANGE OF MARKS FOR GRADES

Range of Marks Grade Grade Points (GP)

90-100 A++ 10

80-89 A+ 9

70-79 B++ 8

60-69 B+ 7

50-59 C 6

00-49 F 0

ABSENT W 0

CUMULATIVE GRADE POINT AVERAGE CALCULATION

The CGPA calculation on a 10 scale basis is used to describe the overall performance of a student in all courses from first semester to the last semester. F and W grades will be excluded for calculating GPA and CGPA.

CGPA

where Ci - Credits for the subject

i Ci GPi

i Ci

GPi - Grade Point for the subject

i - Sum of all subjects successfully cleared during all the semesters

2. Classification of the Degree Awarded

1. A candidate who qualifies for the award of the Degree having passed the examination in all the courses of all the semesters in his/her first appearance within a maximum period of 8 consecutive semesters after commencement of study (maximum of 6 semesters for Lateral entry system who join the course in the third semester) securing a CGPA not less than 9.0 shall be declared to have passed the examination in First Class – Exemplary.

Page 5: B.Tech. (BIOINFORMATICS)

2. A candidate who qualifies for the award of the Degree having passed the examination in all the courses of all the

semesters in his/her first appearance within a maximum period of 8 consecutive semesters after commencement

of study (maximum of 6 semesters for Lateral entry system who join the course in the third semester) securing a

CGPA not less than 7.5 shall be declared to have passed the examination in First Class with Distinction.

3. A candidate who qualifies for the award of the Degree having passed the examination in all the courses of all the

semesters within a maximum period of 8 consecutive semesters after commencement of study (maximum of 6

semesters for Lateral entry system who join the course in the third semester) securing a CGPA not less than 6.0

shall be declared to have passed the examination in First Class.

4. All other candidates who qualify for the award of the Degree having passed the examination in all the courses of all

the 8 semesters within a maximum period of 12 consecutive semesters (10 consecutive semesters for Lateral

Entry system who join the course in the third semester) after his/her commencement of study securing a CGPA

not less than 5.0 shall be declared to have passed the examination in Second Class.

5. A candidate who is absent in semester examination in a course/project work after having registered for the same,

shall be considered to have appeared in that examination for the purpose of classification of degree. For all the

above mentioned classification of Degree, the break of study during the programme, will be counted for the

purpose of classification of degree.

6. A candidate can apply for revaluation of his/her semester examination answer paper in a theory course, within 1

week from the declaration of results, on payment of a prescribed fee along with prescribed application to the

Controller of Examinations through the Head of Department. The Controller of Examination will arrange for the

revaluation and the result will be intimated to the candidate concerned through the Head of the Department.

Revaluation is not permitted for practical courses and for project work.

Final Degree is awarded based on the following:

CGPA 9.0 - First Class - Exemplary

CGPA 7.50 < 9.0 - First Class with Distinction

CGPA 6.00 < 7.50 - First Class

CGPA 5.00 < 6.00 - Second Class

Minimum CGPA requirements for award of Degree is 5.0 CGPA.

3. Discipline

Every student is required to observe disciplined and decorous behaviour both inside and outside the University

and not to indulge in any activity which will tend to bring down the prestige of the University. If a student

indulges in malpractice in any of the University theory / practical examination, he/she shall be liable for punitive

action as prescribed by the University from time to time.

Revision of Regulations and Curriculum

The University may revise, amend or change the regulations, scheme of examinations and syllabi from time to

time, if found necessary.

Page 6: B.Tech. (BIOINFORMATICS)

B.Tech - BIOINFORMATICS

REGULATIONS 2010 – CURRICULUM

I Semester

Sl. No.

1

SUBJECT CODE

SCHX1001

SUBJECT TITLE

Environmental Science & Engineering

L

3

T

0

P

0

C

3

Page No.

1

2 SMTX1003 Statistics 3 1 0 4 2

3 SPHX1001 Physics of Materials 3 0 0 3 3

4 SCYX1001 Engineering Chemistry 3 0 0 3 4

5 SCSX1002 Programming in C 3 0 0 3 5

6 SBTX1001 Cell Biology 3 0 0 3 6

7 SBTX1002 Basic Microbiology 3 0 0 3 7

8 SPHX4001 Physics – Lab I 0 0 2 1 8

9 SCYX4001 Chemistry Lab - I 0 0 2 1 8

10 SCSX4002 Programming in C Lab 0 0 4 2 8

Total Credits : 26

Sl. No.

11

SUBJECT CODE

SHSX1001

II Semester

SUBJECT TITLE

English for Science & Technology

L

3

T

0

P

0

C

3

Page No.

9

12 SMTX1004 Engineering Mathematics 3 1 0 4 10

13 SPHX1002 Applied Physics 3 0 0 3 11

14 SCYX1004 Applied Bio-organic Chemistry 3 0 0 3 12

15 SCSX1003 Programming in C++ 3 0 0 3 13

16 SBTX1003 Genetics 3 0 0 3 14

17 SBTX1004 Molecular Biology 3 0 0 3 15

18 SPHX4002 Physics Lab - II 0 0 2 1 16

19 SCYX4002 Chemistry Lab - II 0 0 2 1 16

20 SBTX4001 Microbiology Lab 0 0 2 1 16

21 SCSX4017 Programming in C++ Lab 0 0 2 1 16

Total Credits : 26

L - Lecture hours; T - Tutorial hours; P - Practical hours; C - Credits

Page 7: B.Tech. (BIOINFORMATICS)

III Semester

Sl. No.

22

SUBJECT CODE

SBIX1001

SUBJECT TITLE

Introduction to Bioinformatics

L

3

T

0

P

0

C

3

Page No.

17

23 SBIX1002 Fundamentals of Protein Sciences 3 0 0 3 18

24 SBIX1003 Biological Databases 3 0 0 3 19

25 SBTX1006 Molecular Biotechnology 3 0 0 3 20

26 SBIX1004 Biomolecular Interactions 3 0 0 3 21

27 SBIX1005 Biophysics – Analytical Instrumentation 3 0 0 3 22

28 SCSX1014 Object Oriented Analysis & Design 3 0 0 3 23

29 SBIX4001 Biochemistry Lab 0 0 4 2 24

30 SBIX4002 Biological Databases Lab 0 0 4 2 24

Total Credits : 25

IV Semester

Sl. No.

31

SUBJECT CODE

SBIX1006

SUBJECT TITLE

Molecular Immunology and

L

3

T

0

P

0

C

3

Page No.

25

Immunoinformatics

32 SBIX1007 Biological Sequence Analysis 3 0 0 3 26

33 SBIX1008 Perl Programming 3 0 0 3 27

34 SMTX1012 Statistics & Random Models 3 0 0 3 28

35 SCSX1015 Database Management Systems 3 0 0 3 29

36 SCSX1005 Data Structures and Algorithms 3 1 0 4 30

37 SBIX4003 Immunology Lab 0 0 4 2 31

38 SBIX4004 Perl Programming Lab 0 0 4 2 31

Total Credits : 23

Page 8: B.Tech. (BIOINFORMATICS)

V Semester

Sl. No.

39

SUBJECT CODE

SCSX1056

SUBJECT TITLE

Oracle & SQL

L

3

T

0

P

0

C

3

Page No.

32

40 SBIX1009 Phylogenetic Analysis 3 0 0 3 33

41 SBIX1010 Genomics & Proteomics 3 0 0 3 34

42 SBIX1011 Introduction to Quantum Chemistry 3 1 0 4 35

43 SBIX1012 Principles of Medicinal Chemistry 3 0 0 3 36

44 SMTX1013 Discrete Mathematics & Applied Numerical

Methods

3 1 0 4 37

45 SCSX1007 Java Programming 3 0 0 3 38

46 SBIX4005 Molecular Biology Lab 0 0 4 2 39

47 SCSX1005 Java Programming Lab 0 0 4 2 39

Total Credits : 27

VI Semester

Sl. No.

48

SUBJECT CODE

SBIX1013

SUBJECT TITLE

Bioinformatics Algorithms

L

3

T

1

P

0

C

4

Page No.

40

49 SBIX1014 Computational Biology 3 1 0 4 41

50 SBIX1015 Molecular Basis of Diseases 3 0 0 3 42

51 SCSX1030 Data Mining & Warehousing 3 1 0 4 43

52 ELECTIVE I 3 0 0 3

53 ELECTIVE 2 3 0 0 3

54 SBIX4006 Biological Sequence Analysis Lab 0 0 4 2 44

55 SBIX4007 Computational Chemistry & Biology Lab 0 0 4 2 44

Total Credits : 25

Page 9: B.Tech. (BIOINFORMATICS)

VII Semester

Sl. No.

56

SUBJECT CODE

SBIX1019

SUBJECT TITLE

Molecular Modeling

L

3

T

0

P

0

C

3

Page No.

45

57 SBIX1020 Quantitative Models in Biological Systems 3 1 0 4 46

58 SBIX1021 Intracellular Network and Analysis 3 1 0 4 47

59 SBAX1001 Principles of Management & Professional Ethics

3 0 0 3 48

60 ELECTIVE 3 3 0 0 3

61 ELECTIVE 4 3 0 0 3

62 SBIX4008 Molecular Modeling Lab 0 0 4 2 52

Total Credits : 22

VIII Semester

Sl. No.

63

SUBJECT CODE

SBIX1025

SUBJECT TITLE

Structural Bioinformatics

L

3

T

0

P

0

C

3

Page No.

49

64 SBIX1026 Rational Drug Design & QSAR 3 0 0 3 50

65 SBIX1027 Gene Expression and Microarrays 3 0 0 3 51

66 SBIX4009 QSAR Lab 0 0 4 2 52

67 S22XPROJ PROJECT 0 0 30 15 52

Total Credits : 26

TOTAL CREDITS FOR THE COURSE : 200

Page 10: B.Tech. (BIOINFORMATICS)

LIST OF ELECTIVES

Note: ONE SUBJECT IS TO BE CHOSEN FROM EACH GROUP COMPULSORILY

Sl. No.

ELECTIVE 1

SUBJECT CODE

SBTX1015

SUBJECT TITLE

Nanobiotechnology

L

3

T

0

P

0

C

3

Page No.

53

SBIX1016 Pharmacogenomics 3 0 0 3 54

SCSX1022 J2EE 3 0 0 3 55

ELECTIVE 2 SBIX1017 Signal Transduction 3 0 0 3 56

SBIX1018 Metabolomics & Transcriptomics 3 0 0 3 57

SCSX1016 Web Technology 3 0 0 3 58

ELECTIVE 3 SBIX1022 Cancer Biology & Therapeutics 3 0 0 3 59

SBIX1023 Forensic Serology and DNA Profiling 3 0 0 3 60

SCSX1029 Soft Computing 3 0 0 3 61

ELECTIVE 4 SCSX1045 Machine Learning 3 0 0 3 62

SBIX1024 Advanced Human Molecular Genetics 3 0 0 3 63

SBTX1027 Biosafety, IPR & Patents 3 0 0 3 64

Page 11: B.Tech. (BIOINFORMATICS)

DUAL DEGREE IN COMPUTER SCIENCE

Provision for candidates from Non-IT Branches of B.E/B.Tech to undergo Dual Degree Programme leading to B.E in Computer Science.

A. Duration and Curriculum

Candidates selected for a Dual degree programme shall undergo additional courses pertaining to Computer Science. These courses constitute with additional Curriculum as per annexure and consist of both core course and electives. The additional courses are to be undergone concurrently from the 3

rd semester of the B.E/B.Tech.

(Non-IT) degree programme and extends for one more year beyond the fourth year of the regular B.E/B.Tech. (Non-IT) degree programme to which he/she was first admitted. The additional courses are to be offered from 3

rd to 8

th Semester after normal working hours so that the regular B.E/B.Tech. (NonIT) remains unaffected.

B. A candidate undergoing dual degree programme should satisfy minimum attendance requirements for the course of additional Curriculum for each semester, as stipulated for the regular B.E/B.Tech. Degree Programme.

C. For the courses of additional Curriculum, a candidate has to write the same examination that is held for the regular B.E. Computer Science.

D. The passing rules for the dual degree programme shall be same as that of the regular B.E/B.Tech. Degree programme.

E. A candidate shall be declared to be eligible for the additional degree of B.E. Computer Science provided that

(i) The candidate has qualified for the regular B.E. or B.Tech. Degree in the non-IT branch in which he/she was originally admitted.

(ii) The candidate has successfully completed all the courses prescribed in the additional Curriculum within a maximum period of 12 semesters from the date of first admission.

(iii) There is no disciplinary action pending against the student.

Page 12: B.Tech. (BIOINFORMATICS)

CURRICULUM

SUBJECTS FOR DUAL DEGREE PROGRAMME IN COMPUTER SCIENCE

Sl.No.

SUBJECT CODE

THIRD SEMESTER

NAME OF THE SUBJECT

L

T

P

C

THEORY

1

SCSX1004

Software Engineering

3

0

0

3

2 SCSX1005 Data Structures & Algorithms 3 1 0 4

PRACTICA

3

LS

SCSX4004

Data Structures Lab

0

0

4

2

TOTAL CREDITS 9

FOURTH SEMESTER

THEORY

1 SCSX1007 Java Programming 3 0 0 3

2 SCSX1009 Computer Architecture & Organization 3 0 0 3

PRACTICALS

3 SCSX4005 Java Programming Lab 0 0 4 2

TOTAL CREDITS 8

FIFTH SEMESTER

THEORY

SCSX1017 Data Communication and Computer Networks

3 1 0 4

2 SCSX1018 Database Systems 3 1 0 4

PRACTICALS

3 SCSX4011 RDBMS Lab 0 0 4 2

TOTAL CREDITS 10

SIXTH SEMESTER

THEORY

1

SCSX1019

System Programming

3

0 0

3

2 SCSX1022 J2EE 3 0 0 3

PRACTICALS

3 SCSX4010 System Programming Lab 0 0 4 2

Page 13: B.Tech. (BIOINFORMATICS)

TOTAL CREDITS 8

Page 14: B.Tech. (BIOINFORMATICS)

SEVENTH SEMESTER

THEORY

1 SCSX1008 C# and .Net 0 0 0 3

2 SCSX1011 Operating System 3 1 0 4

PRACTICALS

3 SCSX4006 C# and .Net Lab 0 0 4 2

TOTAL CREDITS 9

EIGHTH SEMESTER

THEORY

1 SCSX1024 Network Programming & Management 3 0 0 3

2 Elective I 3 0 0 3

3 Elective II 3 0 0 3

PRACTICALS

4 SCSX4012 Network Programming Lab 0 0 4 2

TOTAL CREDITS 11

NINETH SEMESTER

THEORY

1

SCSX1023

Computer Graphics & Multimedia

3

0

0

3

Systems

2 SCSX1030 Datamining & Warehousing 3 0 0 3

3 SCSX1025 Wireless & Mobile Networks 3 0 0 3

4 SCSX1027 Hardware Peripherals and Interfacing 3 0 0 3

5 Elective III 3 0 0 3

6 Elective IV 3 0 0 3

PRACTICALS

7 SCSX4014 Hardware Peripherals Lab 0 0 4 2

8 SCSX4015 Case Tools & Testing Lab 0 0 4 2

TOTAL CREDITS 22

TENTH SEMESTER

1 S11XPROJ Project Work and Viva-Voce 0 0 30 15

TOTAL CREDITS 15

TOTAL COURSE CREDITS : 92

Page 15: B.Tech. (BIOINFORMATICS)

ELECTIVES FOR DUAL DEGREE PROGRAMME IN COMPUTER SCIENCE

Sl.No.

1.

SUBJECT CODE

SCSX1020

NAME OF THE SUBJECT

Component Based Technology

L

3

T

0

P

0

C

3

2. SCSX1026 Cryptography & Network Security 3 0 0 3

3. SCSX1028 Distributed Computing 3 0 0 3

4. SCSX1032 Management Information System 3 0 0 3

5. SCSX1036 FOSS 3 0 0 3

6. SCSX1038 Software Quality Assurance and Testing 3 0 0 3

7. SCSX1039 Unified Modeling Language 3 0 0 3

8. SCSX1042 Robotics 3 0 0 3

9. SCSX1043 Unix Internals 3 0 0 3

10. SCSX1044 Multicore Programming 3 0 0 3

11. SCSX1047 High Performance Network 3 0 0 3

12. SCSX1048 Grid Computing 3 0 0 3

13. SCSX1049 Client Server Architecture 3 0 0 3

14. SCSX1050 TCP/IP and Socket Programming 3 0 0 3

15. SCSX1057 Cloud Computing 3 0 0 3

Page 16: B.Tech. (BIOINFORMATICS)

PART A : 2 Questions from each unit, each carrying 2 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 1 REGULATIONS 2010

SCHX1001 ENVIRONMENTAL SCIENCE AND ENGINEERING

(Common to All Branches)

L T P Credits Total Marks

3 0 0 3 100

UNIT I INTRODUCTION TO ENVIRONMENTAL STUDIES AND NATURAL RESOURCES 12 hrs.

Definition, scope and importance - need for public awareness - forest resources: use and over-exploitation, deforestation, case studies. Timber extraction, mining, dams, floods, drought, conflicts over water, dams-benefits and problems - mineral resources: use effects on forests and tribal people - water resources: use and over-utilization of surface and ground water - exploitation, environmental effects of extracting and using mineral resources, case studies - food resources: world food problems, changes caused by agriculture and overgrazing, effects of modern agriculture, fertilizer-pesticide problems, water logging, salinity, case studies - energy resources: growing energy needs, renewable and non renewable energy sources, use of alternate energy sources. Case studies - land resources: land as a resource, land degradation, man induced landslides, soil erosion and desertification - role of an individual in conservation of natural resources - equitable use of resources for sustainable lifestyles.

UNIT II ECOSYSTEMS AND BIODIVERSITY 12 hrs.

Concept of an ecosystem - structure and function of an ecosystem - producers, consumers and decomposers - energy flow in the ecosystem - ecological succession - food chains, food webs and ecological pyramids - introduction, types, characteristic features, structure and function of the (a) forest ecosystem (b) grassland ecosystem (c) desert ecosystem (d) aquatic ecosystems (ponds, streams, lakes, rivers, oceans, estuaries) - introduction to biodiversity - definition: genetic, species and ecosystem diversity - biogeographical classification of India - value of biodiversity: consumptive use, productive use, social, ethical, aesthetic and option values - biodiversity at global, national and local levels - India as a mega-diversity nation - hot-spots of biodiversity - threats to biodiversity: habitat loss, poaching of wildlife, man-wildlife conflicts - endangered and endemic species of India - conservation of biodiversity: in-situ and ex-situ conservation of biodiversity.

UNIT III ENVIRONMENTAL POLLUTION 10 hrs.

Definition - causes, effects and control measures of: (a) air pollution (b) water pollution (c) soil pollution (d) marine pollution (e) noise pollution (f) thermal pollution (g) nuclear hazards - solid waste management: causes, effects and control measures of urban and industrial wastes - role of an individual in prevention of pollution - pollution case studies - disaster management: floods, earthquake, cyclone and landslides.

UNIT IV SOCIAL ISSUES AND THE ENVIRONMENT 8 hrs.

From unsustainable to sustainable development - urban problems related to energy - water conservation, rain water harvesting, watershed management - resettlement and rehabilitation of people; its problems and concerns, case studies - environmental ethics: issues and possible solutions - climate change, global warming, acid rain, ozone layer depletion, nuclear accidents and holocaust, case studies. - wasteland reclamation - consumerism and waste products - environment protection act - air (prevention and control of pollution) act - water (prevention and control of pollution) act - wildlife protection act - forest conservation act - issues involved in enforcement of environmental legislation - public awareness.

UNIT V HUMAN POPULATION AND THE ENVIRONMENT 8 hrs.

Population growth, variation among nations - population explosion - family welfare programme - environment and human health - human rights - value education - HIV / AIDS - women and child welfare - role of information technology in environment and human health - case studies.

Visit to a local area to document environmental assets-river/forest/grassland/hill/mountain. Visit to a local polluted site-urban/rural/ industrial/agricultural-study of common plants, insects, birds-study of simple ecosystems-pond, river, hill slopes etc.

REFERENCES:

1. Meenakshi.P, Elements of Environmental Science and Engineering, 1st

edition, PHI New Delhi, 2009.

2. Ravikrishnan. A, Environmental Science & Engineering, 3rd

edition, Sri Krishna Publications, Chennai.

3. Wrigh.R.T & Nebel B.J, Environmental science-towards a sustainable future by Richard 8th edition, prentice hall of India, Newdelhi

4. Erach Bharucha ,Text Book of Environmental Studies, University Press, Chennai.

5. Anjanayelu.Y, Introduction to Environmental Engineering, B.S.Publications.

UNIVERSITY EXAM QUESTION PAPER PATTERN:

Max. Marks: 80 Exam Duration: 3 hrs.

Page 17: B.Tech. (BIOINFORMATICS)

PART A : 2 Questions from each unit, each carrying 2 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 2 REGULATIONS 2010

SMTX1003 STATISTICS

(Common to BIOGROUPS)

L T P Credits Total Marks

3 1 0 4 100

UNIT I BASIC STATISTICS 10 hrs.

Measures of central tendency: Mean, Median, Mode, Harmonic mean, Geometric mean- Measures of dispersion: Range, Mean deviation, Quartile deviation and Standard deviation- coefficients of variation, Skewness and Kurtosis.

UNIT II CORRELATION AND REGRESSION 10 hrs.

Karl Pearson’s Correlation coefficient, Spearman’s Rank correlation coefficient, Tied ranks- Linear Regression Analysis - Multiple and Partial Correlation - Multiple Linear Regression (Three variables) Problems only.

UNIT III INTRODUCTION TO PROBABILITY 10 hrs.

Definitions, sample space, events, Addition Law of probability, Multiplication law- conditional probability- Bayes theorem (without proof)

UNIT IV ONE DIMENSIONAL RANDOM VARIABLES 10 hrs.

Definition of a random variable- Discrete and continuous random variables, Probability Mass function, Probability Density Function, Cumulative Distribution Function- Mathematical expectation - Mean and Variance applications only.

UNIT V BASIC THEORETICAL DISTRIBUTIONS 10 hrs.

Binomial Distribution, Poisson Distribution and Normal Distribution, Mean and Variance (applications only)

REFERENCES:

1. Irivin Miller and John E Freund, Probability and Statistics for Engineers, Prentice Hall , 1977.

2. Veerarajan T, Probability, Statistics and Random Process, 4th

edition, Tata Mcgraw Hill, 2008

3. Murray R. Spiegel, Schaum’s Outline of Theory and Problems of Probability and Statistics, Mcgraw-Hill,1975.

4. Ronald E. Walpole, Raymond H. Myers, Sharon L. Myers, Keying Ye , Probability & Statistics for Engineers & Scientists,8th Edition, Prentice Hall, 2006

5. Stephen Bernstein, Schaum’s Outline of Elements of Statistics I: Descriptive Statistics and Probability, McGraw-Hill,1998.

UNIVERSITY EXAM QUESTION PAPER PATTERN

Max Marks : 80 Exam Duration : 3 hrs

Page 18: B.Tech. (BIOINFORMATICS)

B.Tech. (BIOINFORMATICS) 3 REGULATIONS 2010

SPHX1001 PHYSICS OF MATERIALS

(Common to all Branches of B.E / B.Tech)

L T P Credits Total Marks

3 0 0 3 100

UNIT I CONDUCTING AND SUPERCONDUCTING MATERIALS 10 hrs.

Classical Free electron theory of Metals-Derivation of Electrical and Thermal Conductivity- Deduction of Wiedemann Franz law-Lorentz number. Introduction to Band theory, Difference between Conductors, Semiconductors and Insulators - Superconductivity-Transition temperature - occurrence of superconductivity - BCS Theory(Qualitative), properties of superconductors -Type I &Type II superconductors, High Tc superconductors, AC & DC Josephson effects. Applications of superconductors – basic concepts of SQUID, cryotron, magnetic levitation.

UNIT II MAGNETIC AND DIELECTRIC MATERIALS 10 hrs.

Types based on spin. Hard and soft magnetic materials, domain theory of Ferromagnetism, magnetic bubbles, formation and propagation of magnetic bubbles, applications of magnetic materials - Magnetic storage devices. Dielectric parameters, polarization, polarisability, types of polarization. Internal or local electric field - derivation of Lorentz Equation and Clausius - Mossotti Equation, dielectric loss and breakdown, types of dielectric breakdown, types of dielectric materials, applications.

UNIT III OPTICAL MATERIALS 10 hrs.

Optical processes and Excitons - types, Traps - Trapping and recombination, types, Point defects –Frenkel and Schottky defects - Colour centers - types and their mechanisms, Luminescence - Photoluminescence - Types- Fluorescence and Phosphorescence- Mechanism and its applications, Cathodoluminescence, Electroluminescence. Non-linear Optical Materials – Basic Principle, Classifications, Properties - Frequency Doubling or Tripling, Optical Mixing

- Applications. UNIT IV MODERN ENGINEERING MATERIALS 10 hrs.

Metals and alloys – steel and its properties - Iron-carbon phase diagram, Titanium and Aluminium based alloys - Introduction, properties and Applications. Shape Memory Alloys (SMA) - Principle of shape memory effects, Hysteresis curve, Two way shape memory alloys, super-elasticity and thermo-mechanical behavior. Characterization methods to identify the phase transformation of SMA, commercial SMA – Ni-Ti alloys, copper alloys and Cu-Al alloys, Applications. Ceramics – Classification, Properties, fabrication, advanced ceramics and applications. Composites – particle reinforced composites and fiber reinforced composites – processing and applications.

UNIT V CHARACTERIZATION OF MATERIALS 10 hrs.

Structural characterization – X-ray diffraction, electron diffraction and neutron diffraction – Determination of crystal structure. Difference among these diffraction techniques.Micro structural characterization – optical microscope, scanning electron microscope, transmission electron microscope, atomic force microscopy, micro and nano hardness testing – principle and applications.

REFERENCES BOOKS :

1. Ragavan.V, Material science and Engineerimg, 5th

Edition, Eastern Eco, 2004.

2. Suresh.R and Jayakumar.V, Materials Science, 1st

Edition, Lakshmi Publication, 2003.

3. Wilson.J and Hawkes.J.F.B, Optoelectronics- An Introduction, 2nd

Edition, Prentice-Hall of India, 2001.

4. Dr.Arumugam M., Semiconductor Physics and Opto electronics, 1st

Edition, Anuradha Publishers, 2003.

5. Gaur.R.K and Gupta.S.L, Engineering Physics, 8th

Edition, Dhanbat Rai Publications,2007.

6. Palanisamy.P.K, Engineering Physics, 1st

Edition, SCITECH Publications, 2007.

7. Sankar.B.N and Pillai.S.O, A text book of Engineering Physics, 1st

Edition, New Age international Publishers, 2007.

8. Rajendran.V, Engineering Physics, 2nd

Edition, Tata McGraw-Hill, 2008.

9. Avadhanulu.M.N and P.G. Kshirsagar.P.G, Engineering Physics, 2nd

Edition, S. Chand & Company, 2007.

10. Dr. Arumugam M., Engineering Physics, 2nd

Edition, Anuradha Publications, 2002.

11. William D.Callister,Jr, Materials Science and Engineering An introduction, 6th

Edition, John-Wiley and Sons,2004.

12. Cullity.B.D, Principles of X-ray diffraction, 3rd

Edition, Prentice Hall, 2001

UNIVERSITY EXAM QUESTION PAPER PATTERN

Max. Marks: 80 Exam Duration: 3 hrs.

PART A : 2 Questions from each unit, each carrying 2 marks 20 marks

Out of 20 marks, maximum of 10% problems may be asked. PART B : 2 Questions from each unit with internal choice, each carrying 12 marks 60 marks

Out of 60 marks, maximum of 10% problems may be asked

‘Applications’ mentioned in the syllabus refer to the basic applications and not to any specific case.

Page 19: B.Tech. (BIOINFORMATICS)

B.Tech. (BIOINFORMATICS) 4 REGULATIONS 2010

SCYX1001 ENGINEERING CHEMISTRY

(Common to All Branches)

L T P Credits Total Marks

3 0 0 3 100

UNIT I WATER TECHNOLOGY 10 hrs.

Introduction: Impurities present in water, Hardness: Types of hardness, Expression, Units. Estimation of hardness by EDTA method, Problems. Boiler Troubles: Sludge & Scales, Boiler Corrosion. Water Softening: Zeolite process, Demineralization process, Merits and Demerits. Reverse osmosis, Merits and Demerits. Domestic water treatment: Flow chart diagram only.

UNIT II BATTERIES AND FUEL CELLS 10 hrs.

Introduction - Battery terminology: Primary cells, Secondary batteries, Charging and Discharging characteristics, Capacity, Energy density, Cycle life, Internal resistance. Secondary batteries: Lead-acid accumulator, Nickel-cadmium batteries , Lithium primary cells: Lithium-thionyl chloride cell, Lithium-iodine cell. Lithium secondary batteries: Lithium-ion batteries. Fuel cells: Hydrogen-Oxygen fuel cell, Solid oxide fuel cell (SOFC): Principle, construction, anode cathode and electrolyte. Proton Exchange Membrane Fuel Cell.

UNIT III CORROSION SCIENCE 10 hrs.

Introduction - Electrochemical cell representation. Electrochemical series: Significance. Galvanic series. Corrosion:

Definition of corrosion, Dry corrosion: Mechanism of Dry corrosion, Pilling-Bedworth rule, Wet Corrosion: Mechanism. Types of corrosion: Galvanic corrosion, Differential aeration corrosion, Pitting corrosion, Microbial Corrosion. Factors influencing corrosion: Nature of the metal, nature of the environment. Corrosion control: Material selection and Design, Cathodic protection. Corrosion inhibitors: Anodic, cathodic and Vapour phase inhibitors.

UNIT IV EXPLOSIVES AND ROCKET PROPELLANTS 10 hrs.

Introduction - Explosives: Requirements, Classification of Explosives: Low explosives, primary explosives and high explosives. Assessment of explosives.

Rocket engines: Types of rocket engines. Basic principle, Mass fraction, Specific impulse, Thrust, Effective exhaust velocity, Specific propellant consumption. Chemical propellants: Requirements, Classification: Liquid fuels, Liquid oxidizers, Solid fuels, Solid oxidizers.

UNIT V SURFACE CHEMISTRY 10 hrs.

Introduction. Adsorption: Types, Adsorption of gases on solids, Adsorption of solutes from solution. Adsorption isotherms: Freundlich adsorption isotherm, Langmuir adsorption isotherm. Industrial adsorbent materials: Role of adsorbents in catalysis and water softening. Emulsion: Types: water/oil, oil/water. Applications of adsorption: Cottrell’s precipitator, Coating of rubber on metals, Electrostatic painting.

REFERENCES:

1. Jain P.C. and Monica Jain,Engineering Chemistry, 15th

Edition Dhanpat Rai Publishing Co. 2009

2. Dara S.S., Text Book of Engineering Chemistry, S.Chand & Co, 2008

3. Sheik Mideen A., Engineering Chemistry (I & II),13th

Edition, Shruthi Publishers, 2010

4. Parameswara Murthy C, Agarwal C V, Andra Naidu, Textbook of Engineering Chemistry, B S Publications, 2006

5. Kuriakose J.C. and Rajaram J., Chemistry in Engineering and Technology",. Vol.1 & 2, 5th

reprint, Tata McGraw Hill Publishing Company (P) Ltd., 2010.

6. Sharma B.K., Engineering Chemistry, 2nd

Edition, Krishna Prakasam Media (P) Ltd., 2001

7. Puri Br, Sharma Lr, Madhan S Pathania, Principles of Physical Chemistry, 41st

Edition, Vishal Publishing Co., 2004

8. Mars G Fontana, Corrosion Engineering, 3rd

Edition, Tata McGraw Hill, 2008

9. David Linden, Thomas B Reddy, Handbook of Batteries, 4th

Edition, McGraw-Hill, 2010

10. George Paul Sutton, Oscar Biblarz, Rocket Propulsion Elements, 8th

Edition, John Wiley & Sons, 2010

UNIVERSITY EXAM QUESTION PAPER PATTERN:

Max. Marks: 80 Exam Duration: 3 hrs

PART A : 2 Questions from each unit, each carrying 2 marks 20 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks 60 marks

One problem for 5 marks may be asked in Unit 1 - Water Technology

Page 20: B.Tech. (BIOINFORMATICS)

B.Tech. (BIOINFORMATICS) 5 REGULATIONS 2010

SCSX1002 PROGRAMMING IN C

(Common to all Branches of B.E / B.Tech.)

L T P Credits Total Marks

3 0 0 3 100

UNIT I 10 hrs.

Introduction: Algorithms & flowcharts-Overview of C-Features of C-IDE of C Structure of C program-Compilation & execution of C program-Identifiers, variables, expression, keywords, data types, constants, scope and life of variables, local and global variables. Operators: arithmetic, logical, relational, conditional and bitwise operators- Special operators: size of () & comma (,) operator-Precedence and associativity of operators & Type conversion in expressions.

Basic input/output and library functions: Single character input/output i.e. getch(), getchar(), getche() & putchar()-Formatted input/output: printf() and scanf()-Library Functions: concepts, mathematical and character functions.

UNIT II 10 hrs.

Control structures: Conditional control-Loop control and Unconditional control structures.

Functions: The Need of a function-User defined and library function- Prototype of a function-Calling of a function-Function argument-Passing arguments to function- Return values-Nesting of function- main()-Command line arguments and recursion. Storage class specifier – auto, extern, static, & register.

UNIT III 10 hrs.

Arrays: Single and multidimensional arrays-Array declaration and initialization of arrays-Array as function arguments.

Strings: Declaration-Initialization and string handling functions.

Structure and Union: Defining structure-Declaration of structure variable-Accessing structure members-Nested structures-Array of structures-Structure assignment-Structure as function argument-Function that returns structure- Union.

UNIT IV 10 hrs.

Pointers: The ‘&’ and * operators-Pointers expressions-Pointers vs arrays-Pointer to functions-Function returning pointers-Static and dynamic memory allocation in C.

DMA functions: malloc(), calloc(), sizeof(), free() and realloc()-Preprocessor directives.

UNIT V 10 hrs.

File management: Defining, opening & closing a file, text file and binary file- Functions for file handling: fopen, fclose, gets, puts,fprint, fscanf, getw, putw, fputs, fgets, fread, fwrite-Random access to files: fseek, ftell, rewind-File name as Command Line Argument.

Graphics in PC: Initialize Graphics Mode-Functions used In Graphics - Drawing a Point on the Screen-Drawing lines, rectangles, ovals, circles, arcs, polygon, filling colors-Using Text in Graphics Display.

REFERENCES:

1. Balaguruswami.E, ‘Programming in C’, TMH Publications,1997

2. Behrouz A. Forouzan & Richard F. Gilberg, “Computer Science A Structured Programming using C”, Cengage Learning, 3rd

Edition, 2007

3. Gottfried , ‘Programming with C’, schaums outline series, TMH publications,1997

4. Mahapatra , ‘Thinking in C’, PHI publications, 2nd

Edition.

5. Stevens , ‘Graphics programming in C’, BPB publication,2006

6. Subbura.R , ‘Programming in C’, Vikas publishing, 1st

Edition, 2000

UNIVERSITY EXAM QUESTION PAPER PATTERN

Max Marks : 80 Exam Duration : 3 hrs.

PART A : 2 Questions from each unit, each carrying 2 marks 20 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks 60 marks

Page 21: B.Tech. (BIOINFORMATICS)

PART A : 2 Questions from each unit, each carrying 2 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 6 REGULATIONS 2010

SBTX1001 CELL BIOLOGY L T P Credits Total Marks

3 0 0 3 100

UNIT I CELL STRUCTURE AND FUNCTION OF THE ORGANELLES 10 hrs.

Structure and function of Eukaryotic and prokaryotic cells. Structure and function of cell organelles - mitochondria, nucleus, chloroplast ribosomes and golgibodies.

UNIT II MEMBRANES PROTEINS AND CELL DIVISION 10 hrs.

Structure, principles of membrane organization, membrane models, membrane protein types and its functions. Cell division, mitosis and meiosis, cell cycle and cell cycle control.

UNIT III TRANSPORT ACROSS CELL MEMBRANES 10 hrs.

Passive and active transports, permeases, sodium-potassium pumps, Ca2+

ATPase pumps, lysomal and vascular membrane, ATP dependent proton pumps, co-transport: symport, antiport and transport into prokaryotic cell, endocytosis and exocytosis.

UNIT IV RECEPTORS AND MODELS OF EXTRA CELLULAR SIGNALING & SIGNAL TRANSDUCTION

10 hrs.

Cystosolic, nuclear and membrane bound receptors, autocrine. Paracrine and endocrine models of action. Signal simplification, CAMP, role of IP3, CAMP and G- proteins role in Signal transduction, calcium influx and is role in cell signaling.

UNIT V CELL CULTURE 10 hrs.

Study of Cell line, types of cell line, generation of cell lines, maintenance of stock cells, characterization and morphological analysis of cells.

TEXT BOOK:

1. Rastogi S.C., Cell Biology, 3rd

Edition, 2005.

REFERENCES:

1. James E. Darnell, Harvey F. Lodish, David Baltimore, Molecular Cell Biology, Scientific American, 1986.

2. Kimball, TW - Cell Biology, Addison Wesley Publishers, 1989.

UNIVERSITY EXAM QUESTION PAPER PATTERN

Max Marks: 80 Exam Duration: 3 hrs

Page 22: B.Tech. (BIOINFORMATICS)

B.Tech. (BIOINFORMATICS) 7 REGULATIONS 2010

SBTX1002 BASIC MICROBIOLOGY L T P Credits Total Marks

3 0 0 3 100

UNIT I INTRODUCTION 10 hrs.

Historical review of the foundation of microbiology. Whittaker’s five- kingdom concept of living organism Classification of microorganism and methods of classifying and identification of microorganism. Microscopy, light and laser optic systems. Simple, differential and special stains.

UNIT II STRUCTURAL ORGANIZATION 10 hrs.

General structural organization of Bacteria, Virus, Fungi and Actinomycetes and their reproduction. Bacteriophages, multiplication of bacteriophages-lytic and lysogeny cycle.

UNIT III METHODS OF STERILISATION AND DISINFECTION 10 hrs.

Methods of Sterilisation and disinfection- Physical- dry heat, moist heat, UV light, vibration, radiation, filtration, HEPA filter, Chemical-phenol and phenolic compounds, (halogen aliphatic alcohol, formaldehyde, ethylene oxide, heavy metals) anionic and cationic detergents.

UNIT IV METHODS OF STERILISATION AND DISINFECTION 10 hrs.

Growth of microorganisms in different media - growth curve of microbes and different methods of enumeration of multiplying microorganisms.

UNIT V ENVIRONMENTAL APPLICATION OF MICROBIOLOGY 10 hrs.

Ecology, Recycling of biomaterials, production of bio gas, leaching of ores by microorganisms. Application of biofertilizers and biopesticides. Pollution control through user consortium of microorganisms.

REFERENCES:

1. Pelzer. M.J ., Chan E.C.S., Krig, N., Microbiology Tata Megrew hill publishing company Ltd., New Delhi .1996.

2. Prescott., L.M.harley, J.P. & Klein .D.A., Microbiology, 1990, Browb publishers.

3. Schelegel., H.G. General microbiology. Cambridge university press. 1993.

4. Heywood, V.H., Watson, R.T. Global biodiversity assessment, Cambridge university press. 1998.

UNIVERSITY EXAMINATION QUESTION PAPER PATTERN

Max Marks: 80 Exam. Duration: 3 hrs.

PART A : 2 Questions from each unit, each carrying 2 marks 20 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks 60 marks

Page 23: B.Tech. (BIOINFORMATICS)

B.Tech. (BIOINFORMATICS) 8 REGULATIONS 2010

SPHX4002 PHYSICS LAB - I L T P Credits Total Marks

0 0 2 1 50

1. Torsional pendulum- Determination of MI of the disc and rigidity modulus of the wire.

2. Quincke’s method - Determination of magnetic susceptibility of a liquid

3. Semiconductor diode - Determination of width of the forbidden energy gap

4. Ultrasonic interferometer – Determination of Compressibility of liquid

5. Lees disc - Determination of thermal conductivity of a bad conductor.

6. Optical Fiber – Determination of Numerical aperture and attenuation loss.

SCYX4002 CHEMISTRY LAB - I L T P Credits Total Marks

0 0 2 1 50

1. Determination of total, permanent and temporary hardness of a water sample.

2. Estimation of copper in an ore by iodometric titration.

3. Determination of strength of HCl by conductometric titration.

4. Estimation of the amount of ferrous ion by titrating with chromate ion using potentiometer.

5. Verification of the Freundlich isotherm by using acetic acid adsorption on charcoal.

6. Determination of the rate of corrosion of iron metal by hydrogen evolution method.

SCSX4002 PROGRAMMING IN C LAB L T P Credits Total Marks

0 0 4 2 100

1. To write a simple menu driven calculator program using switch statement.

2. To write a program to calculate the nCr using functions.

3. To write a program to find the largest and smallest number using arrays.

4. To write a program to generate Fibonacci series.

5. To write a program to find the factorial of a number using recursion.

6. To write a program to print the sum of elements of an array using pointers.

7. To write a program to implement file handling

8. To write a program to perform matrix addition and multiplication.

9. To write a program to check for perfect number.

10. To write a program to implement string manipulation functions without using library functions.

11. To write a program to perform ASCII equivalent keystrokes.

12. To write a program to solve a polynomial equation.

Page 24: B.Tech. (BIOINFORMATICS)

B.Tech. (BIOINFORMATICS) 9 REGULATIONS 2010

SCSX1001 ENGLISH FOR SCIENCE AND TECHNOLOGY L T P Credits Total Marks

3 0 0 3 100

UNIT I 10 hrs.

Reading comprehension- Skimming and Scanning - Transcoding -Bar diagram, Tables and Pie chart –Discussing topics of general interest or on current topics and making a presentation in the class - Conjunctions and discourse markers- cloze reading- affixes – definitions- tense- voice – jumbled sentences.

UNIT II 10 hrs.

Subject verb agreement - Idioms and phrases, reading passages to answer evaluative, inferential and hypothetical type of questions- Listening - Creative thinking and speaking- Formal letters - application for job- resume preparation- inviting dignitaries to department workshops, symposium and university functions - Letter to the editor.

UNIT III 10 hrs.

Reading and summarising reports - Writing a project proposal - Editing - Checking punctuation and grammatical errors- Types of Sentences – preparation of Check List- formulating questions and answers - communicating politely.

UNIT IV 10 hrs.

Reported speech- Parts of speech- confusable words - Report on industrial visit - project report - Making effective Power Point presentations - speaking about the future plans-expressing opinions-reading and guessing meanings of unknown words from the context – using appropriate verb forms

UNIT V 10 hrs.

Modal auxiliaries – Presentation of problems and solutions – wh- questions- question tags- punctuation- hyponymy- listening and taking notes – study skills – preparing notes

REFERENCES:

1. Aeda Abidi & Ritu Chowdary, “English For Engineers Made Easy”, Cengage India Learning Limited, New Delhi. 2010

2. Geetha Nagaraj, “A Course In Grammar and Composition”, Foundation Books Pvt. Ltd., New Delhi, 2006.

3. Hewings. M, “Advanced English Grammar”, Cambridge University Press, Chennai. 2000.

4. Nagini, P S et al, “Excellence Through communication”, Shri Jai Publications, Chennai, 2005.

5. Raman M & Sangeetha Sharma, “Technical Communication”, Oxford University Press, USA 2005.

6. Reddy Devika and Chowdhary S, “Technical English”, Mac Millan, Chennai. 2009

7. Rizvi, M.A., “Effective Technical Communication”, Tata McGRaw Hill Publishing Company Limited, New Delhi, 2006.

8. Verma. Shivendra K, “Interactive Grammar of Modern English”, Frank Brothers & Company, India, 2000.

UNIVERSITY EXAM QUESTION PAPER PATTERN

Max Marks : 80 Exam Duration : 3 hrs.

Part A: 10 questions of 2 marks each – no choice 20 marks

Part B: 6 questions from the five units with internal choice, each carrying 10 marks 60 marks

Page 25: B.Tech. (BIOINFORMATICS)

B.Tech. (BIOINFORMATICS) 1

0

REGULATIONS 2010

SMTX1004 ENGINEERING MATHEMATICS

(Common to Bio-Tech, Bio-Info and Bio-Med)

L T P Credits Total Marks

3 1 0 4 100

UNIT I MATRICES 10 hrs.

Characteristic equation of a matrix - Eigen values and Eigen vectors of a real matrix- Properties of Eigen values and Eigen vectors, Cayley-Hamilton theorem (without proof) verification - Finding Inverse and Power of a matrix using it - Orthogonal transformation - Reduction of quadratic form to canonical form by Orthogonal transformation.

UNIT II DIFFERENTIAL CALCULUS 10 hrs.

Definitions - Derivative of standard functions (Results only) - Addition, subtraction, Multiplication and Quotient rules of differentiation - Differentiation of function of function - Logarithmic derivatives - Derivatives of implicit function.

UNIT III INTEGRAL CALCULUS 10 hrs.

Integral of standard functions (Results only) -Integration by the method of substitution- Integral of functions of

the type

lx m

ax2 bx c

lx m

, ,

ax2 bxc

a sin x b cos x

c sin x d cos x

. Integration using partial fractions - Integration by parts -

Generalization of integration by parts (Bernoulli’s formula) - Definite integral - Properties - Simple problems.

UNIT IV VECTOR CALCULUS AND BETA, GAMMA FUNCTIONS 10 hrs.

Differentiation of a vector function - Gradient, Divergence and Curl - Directional Derivative - Identities (without proof) - Irrotational and Solenoidal fields - Definitions of Beta and Gamma integrals - Relation between them - Properties - Evaluation of definite integrals in terms of Beta and Gamma function - (without the applications to double and triple integral)

UNIT V PERMUTATION AND COMBINATION 10 hrs.

Fundamental principle of counting - Permutation - Circular permutation - Combination - Relation between permutation and combination (Simple problems). Binomial Theorem (Positive Integral Index only) - General term -

Term independent of x - Coefficient of xn.

REFERENCES:

1. Vittal P R, Allied Mathematics, Margham Publications, 3rd

Edition, 2002

2. Venkataraman M.K., Engineering Mathematics - First Year, 2nd

Edition, National Publishing Co., Chennai, 2000.

3. Frank Ayres and NBSP Elliot Mendelson, Schaum’s Outline of Theory and Problems of Differential and Integral Calculus, Tata Mcgraw Hill, 1990.

4. Narayanan S., Manicavachagom Pillay T.K., Ramanaiah G., Advanced Mathematics for Engineering students, Volume I, 2nd

Edition, S.Viswanathan Printers and Publishers, 1992.

5. Kreyszig.E, Advanced Engineering Mathematics, 8th

Edition, John Wiley & Sons, Singapore, 2001.

UNIVERSITY EXAM QUESTION PAPER PATTERN

Max Marks : 80 Exam Duration : 3 hrs.

Page 26: B.Tech. (BIOINFORMATICS)

B.Tech. (BIOINFORMATICS) 1

1

REGULATIONS 2010

PART A : 2 Questions from each unit, each carrying 2 marks 20 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks 60 marks

Page 27: B.Tech. (BIOINFORMATICS)

m

SPHX1002 APPLIED PHYSICS

(Common For All Branches)

L T P Credits Total Marks

3 0 0 3 100

UNIT I FIBER OPTICS 10 hrs.

Introduction - Principle and structure of optical fibers-Acceptance angle-Numerical aperture-Types of optical fibers-Preparation of fiber – Double crucible technique-Types of rays-Theory of propagation of light-Energy loss in optical fiber- Attenuation and distortion-Fiber splicing – Fusion and mechanical splicing-Fiber connectors -Butt joint and expanded beam connectors-Optical fiber communication system (block diagram) - Advantages and its applications.

UNIT II ACOUSTICS OF BUILDINGS 10 hrs.

Introduction – Musical sound & noise-Characteristics of musical sound : pitch, loudness, quality – Weber-Fechner law-Relation between pitch & frequency-Factors on which intensity & loudness depend-Decibel scale-Sound intensity level and sound pressure level-Sound absorption-OWU-Sound absorption coefficient and its measurements – Reverberation - Reverberation time – Standard Reverberation time – Sabine’s formula to determine the Reverberation time (Jaegar method)- Factors affecting the acoustics of a building and the remedies-Principles to be followed in the acoustical design of a good auditorium.

UNIT III FUNDAMENTALS OF DIGITAL ELECTRONICS 10 hrs.

Number systems - Binary, decimal, Hexadecimal and Octadecimal-Conversion from one number system to another-Binary addition-Subtraction - Subtraction by 1’s & 2’s complement- BCD-ASCII-Excess 3 code and gray code.

UNIT IV NANO DEVICES 10 hrs.

Definition-Fabrication-Top down approach and bottom up approach-Nanomagnets – Particulate Nanomagnets, Geometrical Nanomagnets-Magneto Resistance – Ordinary Magneto Resistance, Giant Magneto Resistance, Tunneling Magneto Resistance- Probing Nanomagnetic Materials-Nanomagnetism in Technology-Nano Devices – Injection Laser – Quantum Cascade Laser – Optical Memories and Coulomb Blockade Devices

UNIT V MEDICAL PHYSICS 10 hrs.

Ultrasonics –Introduction- Production of ultrasonic waves - Piezo-electric method-properties-Doppler effect - Blood flow meter – Determination of upward and downward transit time- A- scan, B-scan and M-scan-X-rays – Introduction-Units of X-rays- Diagnostic technologies of X-rays – Radiography-Fluoroscopy-Image intensifier-Nuclear

medicine – Introduction-units of radioactivity, 99

Tc generator, nuclear medicine imaging devices - Gamma camera.

REFERENCES : 1. Mathur.D.S, Heat and Thermodynamics, 5

th Edition, Sultan Chand & Sons, 2004.

2. Gerd Keiser, Optical fiber communication, 3rd

Edition, Tata Mc Graw Hill, 2000.

3. John M. Senior, Optical fiber communications - Principle and Practice, 2nd

Edition, Pearson Education, 2006.

4. Franz J.H, Jain V.K, Optical communication – Components and Systems,1st

Edition, Narosa Publications, 2001.

5. Malvino,Leach & Gautam Saha, Digital Principles and applications, 6th

Edition, McGraw Hill, 2006.

6. William H. Gothman, Digital electronics – An int. to theory and practice,2nd

Edition, PHL of India, 2007.

7. Roy, Medical Bio Physics, 1st

Edition, Saras Publications, 2001.

8. Vasantha Pattabhi, Bio Physics, 1st

Edition, Narosa, 2004.

9. Gaur. R.K. and Gupta. S.L., Engineering Physics, 8th

edition, Dhanbat Rai Publications,2007.

10. Avadhanulu. M.N. and. Kshirsagar. P.G, Engineering Physics, 2nd

edition, S. Chand & Company, 2007.

11. Dr. Arumugam M., Engineering Physics, 2nd

edition, Anuradha Publications, 2002.

12. William D.Callister, Jr, Materials Science and Engineering An introduction, 6th

Edition, John-Wiley and Sons, 2004.

UNIVERSITY EXAM QUESTION PAPER PATTERN

Max. Marks: 80 Exam Duration: 3 hrs.

PART A : 2 Questions from each unit, each carrying 2 marks 20 marks

Out of 20 marks, maximum of 10% problems may be asked

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks 60 marks

Out of 60 marks, maximum of 10% problems may be asked

Page 28: B.Tech. (BIOINFORMATICS)

‘Applications’ mentioned in the syllabus refer to the basic applications and not to any specific case

Page 29: B.Tech. (BIOINFORMATICS)

SCYX1004 APPLIED BIO-ORGANIC CHEMISTRY

(Common to BIOTECH, BIOINFO and BIOMED)

L T P Credits Total Marks

3 0 0 3 100

UNIT I CARBOHYDRATES 10 hrs.

Introduction. Classification: Sugars and NonSugars. Glucose: Physical and chemical properties, epimerization, mutarotation, structural elucidation of glucose:open chain and closed chain structure. Sucrose: physical and chemical properties, structural elucidation of sucrose. Structure and biological importance of important polysaccharides: starch, cellulose, chitin, heparin and glycoproteins.

UNIT II AMINOACIDS AND PROTEINS 10 hrs.

Aminoacids: classification :, , and aminoacids, acidic, basic, neutral aminoacids, essential and non essential amino acids. Preparation: HVZ reaction, Strecker synthesis, Gabriel Phthalamide synthesis. Physical properties: isoelectric point. Chemical properties: reaction of amino group, carboxyl group and both. Proteins: Classification: based on shape and solubility. Structure of proteins: primary, secondary, tertiary and quaternary.

UNIT III ANTIBIOTICS 10 hrs.

Introduction, Importance, Classification of antibiotics. Pencillin : Production, isolation, properties, constitution and structure of penicillin, different types of penicillin. Structure and uses of chloramphenicol, oxytetracyclin, ciprofloxacin.

UNIT IV BIOCHEMICAL TECHNIQUES 10 hrs.

Chromatography: classification, principles, adsorption and partition, paper, thin layer chromatography. Elution analysis. Gas chromatography (GC): Block diagram. Detectors: Flame Ionization detector (FID). Liquid chromatography: principles, adsorption and partition. HPLC: Block diagram only. Electrophoresis: High voltage Electrophoresis, GEL, PAGE.

UNIT V BIOMATERIALS 10 hrs.

Introduction: Definition. Metal implant materials: Composition and Properties of Titanium and Titanium based alloys. Dental metals: Dental amalgam, Gold and Ni - Ti Alloys. Ceramic biomaterials : Resorbable ceramics: Hydroxyapetite, Al - Ca phosphate. Polymer biomaterials: PMMA, hydrogels, silicone rubber, nylon . Biological applications of Gold, Silver nanoparticles and carbon nano tubes.

REFERENCES:

1. Powar C.B. and Chatwal G.R , Biochemistry, 5th

Edition, Himalaya Publishing House 2006.

2. Charles P.Poole Jr, and Frank J Owens, Introduction to Nanotechnology, John Wiley and Sons 2006.

3. Gurdeep R Chatwal, Organic Chemistry of Natural Products Vol II , 2nd

revised Edition, Himalaya Publishing House 1986

4. Skoog, Holler and Nieman, Principles of Instrumental Analysis, 5th

Edition, Thomas Inc., 2003.

5. Tewari K.S., Vishnoi N.K. and Mehrotra S.N., A Text Book of Organic Chemistry, 2nd

Revised Edition, Vikas Publications 2004.

6. Rastogi S.C., Biochemistry, 6th

Reprint, Tata McGraw Hill Publishing Limited 2007.

7. Willard Merit Dean Settle, Instrumental Methods of Analysis, Seventh Edition, CBS Publishers and Distributors

8. Leninger, Principle of Biochemistry, Macmillan Worth Publications

9. Sujatha V Bhat, biomaterials, 2nd

Edition, Narosa Publishing house 2007.

10. Joon Park, R.S. Lakes, Biomaterials Introduction, 3rd

Edition, Springer 2007.

UNIVERSITY EXAM QUESTION PAPER PATTERN

Max. Marks: 80 Exam Duration: 3 hrs.

PART A : 2 Questions from each unit, each carrying 2 marks 20 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks 60 marks

Page 30: B.Tech. (BIOINFORMATICS)

UNIVERSITY EXAM QUESTION PAPER PATTERN

Max Marks : 80

PART A : 2 Questions from each unit, each carrying 2 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks

Exam Duration : 3 hrs.

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 13 REGULATIONS 2010

SCSX1003 PROGRAMMING IN C++

(Common to all Branches)

L T P Credits Total Marks

3 0 0 3 100

UNIT I INTRODUCTION TO C++ 10 hrs.

Object Oriented Programming Paradigms - Comparison of Programming Paradigms – Object Oriented Languages - Benefits of Object Oriented Programming - Comparison with C - Overview of C++ -Pointers-References and Structures

- Functions - Scope and Namespaces - Source Files and Programs.

UNIT II CLASSES AND OBJECTS 10 hrs.

Working with classes – Classes and objects – Class specification-Class objects-Accessing class members-Defining class members-Inline functions-Accessing member functions within class-Data hiding-Class member accessibility-Empty classes, constructors-Parameterized constructors-Constructor overloading-Copy constructors-new, delete operators-”this” pointer-friend classes and friend functions-Function overloading-Operator overloading.

UNIT III DERIVED CLASSES 10 hrs.

Base class and derived class relationship-Derived class declaration-Forms of inheritance-Inheritance and member accessibility- Constructors in derived class-Destructors in derived class-Multiple inheritance-Multi level inheritance-Hybrid inheritance-Virtual base classes-Member function overriding-Virtual functions.

UNIT IV I/O AND LIBRARY ORGANIZATION 10 hrs.

I/O Stream - File I/O - Exception Handling - Templates - STL – Library Organization and Containers – Standard Containers - Overview of Standard Algorithms-Iterators and Allocators.

UNIT V OBJECT ORIENTED DESIGN 10 hrs.

Development Process – Management - Object Identification – Components - Object Oriented Design Fundamentals – Case Studies.

TEXT BOOKS:

1. Balagurusamy, ”Object Oriented Programming with C++”, Tata McGraw Hill,4th

Edition,2010

2. Venu Gopal.K.R, Ravishankar.T, and Raj kumar, ”Mastering C++”, Tata McGraw Hill,1999.

REFERENCES:

1. Bjarne Stroustrup, ”The C++ programming language”, Addision Wesley, 3rd

Edition,1998.

2. John R Hubbard, “Programming with C++”, Shaums Outline Series, McGraw Hill, 2nd

edition.

3. James Martin & James J.Odell,”Object Oriented methods-A foundation”,Prentice Hall,1997.

4. Grady Booch, “Object Oriented Analysis and Design with application”, Addission Wesley, II Edition ,1994.

Page 31: B.Tech. (BIOINFORMATICS)

PART A : 2 Questions from each unit, each carrying 2 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 1

4

REGULATIONS 2010

SBTX1003 GENETICS L T P Credits Total Marks

3 0 0 3 100

UNIT I MENDELIAN PRINCIPLE 10 hrs.

Mendel and his experiments and the laws of inheritance, Variation on Mendel’s Theme: Incomplete dominance; Gene interactions (Epistasis; Duplicate, Complementary, Supplementary and Lethal factors)

UNIT II CHROMOSOMES 10 hrs.

Structural organization, Variations in the number and structure of chromosomes: Haploids; Missing or extra chromosomes (Euploids, Aneuploids); Deletion; Duplication; Aberrations; Translocation and other structural rearrangements. Chromosomal studies - Karyotyping. The chromosomal theory of inheritance; Clues from inheritance of sex; linkage and crossing over; gene mapping; Genetic recombination in Prokaryotes and Eukaryotes

UNIT III CHEMICAL BASIS OF HEREDITY 10 hrs.

Evidence for DNA (and RNA) as genetic material; Basic equivalence in DNA; The Watson and Crick model of DNA structure. Different physico-chemical properties of DNA (Tm value, cot values, Renaturation Kinetics, C-value paradox)

UNIT IV BACTERIAL GENETICS 10 hrs.

Genetic transfer of characters; Bacterial conjugation, Transformation - Cellular competence and environmental conditions required for transformation - linkages; Transduction - general, restricted and abortive transductions; Fine structure study through transduction

UNIT V HUMAN GENETICS 10 hrs.

Human Chromosomes, Dosage Compensation, Chromosomal abnormalities - sex chromosomal and autosomal. Inherited disorders, Genetic counseling, Genetic engineering and gene therapy, inborn errors of metabolism.

TEXT BOOK:

1. David Friefelder, Molecular Genetics, Narosa publishing house, India, 2006.

REFERENCES:

1. Gardne, E.J, Principles of Genetics, 7th

Edition John Wiby & Sons ltd, 1991.

2. Griffith, Fundamentals of Genetics analysis, 7th

Edition, 2000. W.H. Freeman & Company, Newyork. .

UNIVERSITY EXAMINATION QUESTION PAPER PATTERN

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B.Tech. (BIOINFORMATICS) 1

5

REGULATIONS 2010

Max Marks: 80 Exam. Duration: 3 hrs.

Page 33: B.Tech. (BIOINFORMATICS)

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PART B : 2 Questions from each unit with internal choice, each carrying 12 marks

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 1

6

REGULATIONS 2010

SBTX1004 MOLECULAR BIOLOGY L T P Credits Total Marks

3 0 0 3 100

UNIT I PROKARYOTES 10 hrs.

Structure of DNA, different forms of DNA and RNA, secondary structure in single stranded nucleic acids.

UNIT II REPLICATION 10 hrs.

Semi-conservative process, transcription and translation, codon usage, inhibitors of transcription and translation.

UNIT III MUTATION AND GENE REGULATION 10 hrs.

Mutation, DNA repair mechanism, Gene regulation, operon concept -gal, lac and trp.

UNIT IV EUKARYOTES 10 hrs.

Organization of genome, interaction with histones. transcription: Exon- intron concepts, transcription initiation - host of factors, and characteristics motifs in these factors, promotors and enhancers.

UNIT V SPLICING MECHANISMS AND CANCER CAUSING VIRUSES 10 hrs.

RNA splicing - Splicing of pre tRNA, pre mRNA and pre rRNA. Retroviruses, retroposons and oncogenes.

TEXT BOOK:

1. David Freifelder, Molecular Biology, Narosa Publishing House, 2nd

Edition. 1998

REFERENCE:

1. De Roberties and De Roberties JR, Cell and Molecular Biology, BI publications, PVT Ltd., India. 8th

Edition . 2005.

UNIVERSITY EXAMINATION QUESTION PAPER PATTERN

Max Marks: 80 Exam. Duration: 3 hrs.

Page 34: B.Tech. (BIOINFORMATICS)

8. Write a program to sort the numbers using class templates

B.Tech. (BIOINFORMATICS) 16 REGULATIONS 2010

SPHX4002 PHYSICS LAB II L T P Credits Total Marks

0 0 2 1 50

1. Air wedge - Determination of thickness of a thin wire

2. B.H. Curve - Determination of energy loss.

3. Spectrometer- Hollow prism - Determination of refractive index of the given liquid

4. Non uniform bending - Determination of Young’s modulus of the material of the beam by Microscopic method.

5. Copper Voltameter - Determination of electrochemical equivalent of copper.

6. Hall effect -Determination of Hall coefficient.

SCYX4002 CHEMISTRY LAB II L T P Credits Total Marks

0 0 2 1 50

1. Estimation of Glycine by Sorenson’s Formal titration method.

2. Determination of Ferric ion by thiocyanate method using Calorimeter.

3. Determination of Chemical oxygen demand in wastewater by dichromate titration method.

4. Estimation of the strength of acid by pH titration.

5. Determination of molecular weight of a polymer by viscosity measurement method.

6. Determination of calorific value of a substance using Bomb calorimeter

SBTX4001 MICROBIOLOGY LAB L T P Credits Total Marks

0 0 2 1 50

1. Preparation of glassware and sterilization

2. Preparation of culture media for bacteria

3. Aseptic transfer of pure cultures

4. Sterilization techniques

4. Pure culture of bacteria

5. Motility of bacterial cell

6. Simple staining

7. Gram staining

8. Antibiotic sensitivity test

SCSX4017 PROGRAMMING IN C++ LAB L T P Credits Total Marks

0 0 2 1 50

1. Write a program to find the area of square, rectangle, circle using function overloading concept.

2. Write a program to change the sign of an operands using unary operator overloading concept.

3. Write a program to add two complex numbers using binary operator overloading concept.

4. Implement parametrized constructor, default conctructor, copy constructor and destructor

5. Write a program to enter the sale value and print the agent’s commission using single inheritance.

6. Write a program to count the words and characters in given text using virtual function.

7. Write a program to merge two files into one single file

Page 35: B.Tech. (BIOINFORMATICS)

PART A : 2 Questions from each unit, each carrying 2 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 1

7

REGULATIONS 2010

SBIX1001 INTRODUCTION TO BIOINFORMATICS L T P Credits Total Marks

3 0 0 3 100

UNIT I INTRODUTION 10 hrs.

Definition, role of computer in Bioinformatics, Branches of Bioinformatics, Aim of Bioinformatics, Scope and Research areas of Bioinformatics. Genome projects, human genome project, role of Bioinformatics in biological sequences. Biological data- DNA sequence protein sequence, macromolecular structure.

UNIT II BIOLOGICAL DATABASES 10 hrs.

Biological Databases - Sequence and Molecular formats, Introduction of databases in bioinformatics, biological sequence databases, protein3D structure and classification databases. Data integration- data mining-data warehousing- structural and genomic studies-SNP-micro arrays-drug design- other applications.

UNIT III COMPUTING IN BIOINFORMATICS 10 hrs.

Introduction to internet-facilities used on the internet-www- web browsers, introduction to network basics- LAN, wan, network topology, protocol. Basic principles of computing in bioinformatics - databases system, programming languages for bioinformatics-Perl.

UNIT IV TOOLS APPLICATIONS IN BIOINFORMATICS 10 hrs.

Bio-algorithms and Tools-Introduction to sequence alignment, Overview of sequence annotation. Gene prediction methods-Principles and challenges, Molecular phylogeny, Molecular viewers. Introduction to Phylogenetic analysis- definition, concepts of tree, steps in constructing Phylogenetic analysis.

UNIT V SOFTWARES IN BIOINFORMATICS 10 hrs.

Basic software tools used in bioinformatics - Sequence analysis- GCG, Emboss - Databases searching- Blast, Fasta - Cn3D viewer- Rasmol, Swiss pdb viewer, Pymol, Jmol.Modeling- Discovery studio 2.0, Auto dock.

TEXT BOOK:

1. Zhumur Ghosh and Bibekanand Mallick in “Bioinformatics-Principles and applications”.

REFERENCES:

1. Des Higgins and Willie Taylor in “Bioinformatics sequence structures and databases”, by Oxford University press, 1st

ed., 2000.

2. Atwood, Paey Smith in “Introduction to bioinformatics”, 2001.

3. Arthur M.Lesk in “Introduction to bioinformatics”, 2002.

4. David W. Mount in “Bioinformatics: Sequences and genome analyses”, Cold Spring Harbor Laboratory press, 2000.

5. Westhead, Parish and Twyman in “Instant notes: Bioinformatics”, 2003.

UNIVERSITY EXAM QUESTION PAPER PATTERN

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PART A : 2 Questions from each unit, each carrying 2 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 1

8

REGULATIONS 2010

Max Marks : 80 Exam Duration : 3 hrs.

Page 37: B.Tech. (BIOINFORMATICS)

Max Marks : 80

PART A : 2 Questions from each unit, each carrying 2 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks

Exam Duration : 3 hrs.

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 1

8

REGULATIONS 2010

SBIX1002 FUNDAMENTALS OF PROTEIN SCIENCES L T P Credits Total Marks

3 0 0 3 100

UNIT I INTRODUCTION 10 hrs.

Crystallography-Crystal Geometry: crystal symmetry; crystal systems & classes; unit cell & space lattices; crystal structures; atomic coordination; Miller indices & crystal planes; crystal directions; atomic & ionic radii. Methods of Determining Structures: x-ray diffraction; the powder method; electron diffraction; neutron diffraction.

UNIT II AMINO ACIDS AND PEPTIDES 10 hrs.

Amino acids and peptides - classification of amino acids- Bonds and energies in protein makeup - Covalent, Ionic, Hydrogen, Coordinate, hydrophobic and Vander walls interactions in protein structure - properties of aminoacids - stereoisomerism, isoelecric pH – Polypeptides- Conformational Parameters, Peptide bonding - Ramachandran diagram. Structural hierarchy in protein - primary structure, secondary structures -alpha helix & beta sheet, super secondary structures - motifs and domains, tertiary & quaternary stuctures of proteins.

UNIT III DETERMINATION OF PROTEIN STRUCTURE 10 hrs.

Identification of protein structure - determination using X-ray diffraction method, NMR method - theory of Anfinsen - propensity of aminoacids to form alpha helix and beta sheet - predicting protein structure from protein sequence data.

UNIT IV BASICS ON PROTEINS 10 hrs.

Basics in protein folding and protein stability - protein denaturation - types of denaturation – thermal, solvent denaturations – Post translational modification- kinetics and mechanism of protein folding - Levinthal’s paradox - native form of protein and energy funnel.

UNIT V PROTEIN ENGINEERING 10 hrs.

Protein Engineering - Advantages and purpose, overview of methods and designing of proteins, site directed mutagenesis - introduction to de novo design of proteins and its application, Fusion proteins – Bifunctional, trifunctional and multifunctional enzymes.

REFERNCES:

1. Creighton T E, Proteins, Freeman WH, Second ed, 1993.

2. L. Stryer, Biochemistry, 5th ed., New York: W. H. Freeman Company, 2002.

3. Branden C, Tooze R, Intro of protein structure, Garland, 1993.

4. Voet D. and Voet G., “Biochemistry”, Third Edn. John Wiley and Sons, 2001.

5. Schulz, Schrimer, Principle of Protein Structure, Wiley, 1979.

UNIVERSITY EXAM QUESTION PAPER PATTERN

Page 38: B.Tech. (BIOINFORMATICS)

Max Marks : 80

PART A : 2 Questions from each unit, each carrying 2 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks

Exam Duration : 3 hrs.

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 1

9

REGULATIONS 2010

SBIX1003 BIOLOGICAL DATABASES L T P Credits Total Marks

3 0 0 3 100

UNIT I INTRODUCTION TO DATABASES 10 hrs.

Introduction to Genomic data and proteomic Data Organization-post genomic era- data acquisition- functions and purposes of biological databases- relational and object oriented concepts - Information retrieval concepts of digital libraries. Information Retrieval from Biological Databases:ENTREZ-SRS.

UNIT II INTRODUCTION TO NUCLEIC ACID DATABASES 10 hrs.

Primary & Secondary database- Format vs content-INSDC- GenBank Flat File - EMBL nucleotide sequence data bank-DDBJ -.RNA SEQUENCE DATABASES: 16S and 23S rRNA mutation databases- HIV sequence databases-NONCODE-sequence submission tools: sequin, webin, sakura, Bankit.

UNIT III INTRODUCTION TO PROTEIN SEQUENCE DATABASES 10 hrs.

Protein sequence databases:PIR- SWISSPROT-Uniprot –TrEMBL- EXprot-NCBI proteindatabases – PRF – Uniparc – MIPS-DIP.Protein sequence motif databases:Eblocks-e motif-PROSITE.PROTEIN DOMAIN DATABASES: ADDA, Interpro, Pfam -prodom

UNIT IV INTRODUCTION TO STRUCTURE DATABASES AND PROTEIN INTERACTION DATABASE1S0 hrs.

PDB- PDB sum- SCOP-CATH- MMDB-E MSD-SWISS MODEL repository- ModBase- Protein Model Portal-EuroCarbDB-DIP-BIND-STRING.

UNIT V INTRODUCTION TO SPECIALIZED DATABASES 10 hrs.

Metabolic pathway database-KEGG - Microarray databases:Array Express-GEO-SMD - Meta databases:EuGene-Gene cards-Metabase - Genome databases:Flybase- MGI Mouse GENOME-TAIR.

REFERENCES:

1. Orpita Bosu, Simminder Kaur Thukral; “Bioinformatics: Experiments, Tools, Databases, and Algorithms”, Oxford universityt press USA, September 2007.

2. Des Higgins and Willie Taylor, “Bioinformatics sequence, structures and databases”, Oxford University press, 1st

ed., 2000.

3. Atwood, “Introduction to bioinformatics”, Pearson Education (singapore) Pte Ltd 2008.

4. Arthur M.Lesk, “Introduction to bioinformatics”, Oxford University Press N Delhi, 2009.

5. David W. Mount. “Bioinformatics: Sequences and genome analyses”. Cold Spring Harbor Laboratory press, 2000.

UNIVERSITY EXAM QUESTION PAPER PATTERN

Page 39: B.Tech. (BIOINFORMATICS)

Max Marks: 80

PART A : 2 Questions from each unit, each carrying 2 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks

Exam Duration: 3 hrs.

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 20 REGULATIONS 2010

SBTX1006 MOLECULAR BIOTECHNOLOGY L T P Credits Total Marks

3 0 0 3 100

UNIT I INTRODUCTION TO rDNA TECHNOLOGY 10 hrs.

Introduction to Recombinant DNA, Gene cloning, cloning strategies, restriction and modification, restriction endonucleases, DNA ligases. Vectors for cloning – plasmids, phages, cosmids, phagemids, M13 phages, SV 40 vectors, Yeast artificial chromosomes, Shuttle Vector, expression vectors, Broad Host range vectors.

UNIT II BASIS OF rDNA TECHNOLOGY 10 hrs.

Enzymes involved in genetic engineering, isolation and separation of DNA to be cloned – agarose gel electrophoresis, restriction digestion, and modification of cut ends of DNA, insertion of foreign DNA into vector (ligation), construction of gene library – genomic and cDNA library.

UNIT III GENETIC TRANSFORMATION 10 hrs.

Transferring DNA into host cells or DNA delivery methods- physical, biological and chemical methods.

UNIT IV SELECTION AND SCREENING OF RECOMBINANTS 10 hrs.

Methods for clone identification-direct screening (insertional inactivation of marker gene, visual screening methods), indirect screening (immunological techniques, rescue techniques, colony hybridization and dot blot hybridization), hybridization techniques – southern blotting, Northern blotting, western blotting.

UNIT V APPLICATIONS OF RECOMBINANT DNA TECHNOLOGY: 10 hrs.

Applications of gene cloning in agriculture (transgenic animals and transgenic plants), applications of cloning in industry (production of proteins, enzymes etc used in manufacturing processes), GEMs application in environmental biotechnology (generating microbes for remediation, oil eaters etc). Applications of rDNA technology in medicine (Production of antibiotics, insulin, somatostatin, interferons, vaccines, probes for infectious and genetic disease diagnosis, gene therapy).

REFERENCES:

1. R. Glick and J. Pasternak, Molecular Biotechnology – 3rd Ed. ASM press, Washington, 2003.

2. RW Old and SB Primrose, Principles of gene manipulation, 4th Ed. Blackwell scientific publications London, 1989.

3. TA Brown, Gene cloning – An introduction – VNR (UK) Co. Ltd England, 1988

UNIVERSITY EXAMINATION QUESTION PAPER PATTERN

Page 40: B.Tech. (BIOINFORMATICS)

UNIVERSITY EXAM QUESTION PAPER PATTERN

Max Marks : 80

PART A : 2 Questions from each unit, each carrying 2 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks

Exam Duration : 3 hrs.

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 2

1

REGULATIONS 2010

SBIX1004 BIOMOLECULAR INTERACTIONS L T P Credits Total Marks

3 0 0 3 100

UNIT I ENZYME KINETICS 10 hrs.

Kinetics of enzyme catalyzed reaction, Enzyme kinetics: derivation of Michealis Menton equation, Line Weaver Burk plot, Factors influencing enzyme activity, Inhibitor kinetics (Competitive, Non-competitive and Uncompetitive). Mechanism of enzyme of enzyme action - active site definition. Lock and Key hypothesis, Induced fit hypothesis, Allosteric enzymes, Feed-back inhibition.

UNIT II CHEMICAL BONDING 10 hrs.

Chemical bonding – Non-bonding Interactions – Electrovalent bond, stability of Electrovalent bond – Conformational features – Bond shapes; hybridization – Molecular geometry, Partial ionic character, Co-ordination, Vanderwaals forces, Metallic bond.

UNIT III THEORY OF ORBITALS 10 hrs.

Theory of Atomic & Molecular orbitals – linear combination of atomic orbitals – Quantitative treatment of valency bond theory, Resonance – Structure.

UNIT IV INTERACTIONS AND COMPLEXES 10 hrs.

Transition Metal Complexes and their interaction with nucleic acids -Structures of Nucleic acids, Interactions of Metal complexes with Nucleic Acids - Fundamental Reactions with Nucleic Acids - Nuclease Activity of Classical TRIS (Phenanthroline),Applications of Nuclease Activity of Metal complexes, Nucleic Acid Interactions in Nature.

UNIT V TYPES OF INTERACTIONS 10 hrs.

Weak Interactions - PiPi Interactions, molecular interactions: Protein – protein , Protein-DNA, DNA- Drug, Protein – Lipid, Protein – Ligand, protein – Carbohydrate, Intercalation, Metalloproteins.

REFERENCES:

1. Lubert Stryer., Jeremy M. Berg, and John L. Tymoczko., Biochemistry, 5th Ed, W.H.Freeman & Co Ltd; 2002.

2. David L. Nelson., Michael M. Cox., Albert L. Lehninger., Lehninger Principles of Biochemistry, W. H.Freeman; Fourth edition, 2004.

3. Harold A. Harper., Harper’s Review of biochemistry. Appleton & Lange edition., 1986.

4. Nicholas C.Price., L. Stevens., “Fundamentals of Enzymology” 5th Edition, Oxford University Press 1982.

5. U. Sathyanarayana., “Biotechnology” - Books and Allied (P) Ltd. Kolkata, 2007.

6. K. Hussain Reddy, “Bioinorganic Chemistry” - New Age International., 2007.

Page 41: B.Tech. (BIOINFORMATICS)

UNIVERSITY EXAM QUESTION PAPER PATTERN

Max Marks : 80

PART A : 2 Questions from each unit, each carrying 2 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks

Exam Duration : 3 hrs.

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 2

2

REGULATIONS 2010

SBIX1005 BIOPHYSICS – ANALYTICAL INSTRUMENTATION L T P Credits Total Marks

3 0 0 3 100

UNIT I PRINCIPLE OF FLUORESCENCE 10 hrs.

Fluorescence-Principle-Intensity of fluorescence-fluorescent groups, sensitivity of fluorescence to environment and biological applications-Optical activity measurements-ORD / CD applications to nucleic acids and proteins-Differential scanning calorimetry (DSC)- Theormogravimetric analysis (TA) of biomolecules.

UNIT II CENTRIFUGATION AND SEDIMENTAION 10 hrs.

Centrifugation – Principles of sedimentation, Sedimentation co-efficient, Svedberg’s equation, Lammi’s equation; types of centrifuges – Preparative and Analytical centrifuges - Application of centrifugation.

UNIT III DIFFERENT TECHNIQUES USED IN MOLECULAR BIOLOGY 10 hrs.

Electrophoresis – Principle, factors affecting electrophoretic mobility, types of electrophoresis – Gel electrophoresis – Disc, SDS – PAGE. Isoelectricfocussing. Isotacophoresis, Capillary electrophoresis-Applications of gel electrophoresis.

UNIT IV DIFFERENT TECHNIQUES USED IN MEDICINAL CHEMISTRY 10 hrs.

Chromatography – Principles, Types – Thin Layer Chromatography, Column chromatography, Molecular sieving chromatography, Affinity chromatography, HPLC, GC - Radioactive techniques-Liquid scintillation counting- Applications of chromatography.

UNIT V APPLICATIONS OF DIFFERENT METHODS IN DRUG DISCOVERY 10 hrs.

Spectroscopy – Beer Lambert’s Law, Principle, Instrumentation, Applications - UV – Vis spectrophotometer, Mass spectroscopy, NMR spectroscopy, EPR Spectroscopy, IR and Raman spectroscopy. Applications and Uses of all spectroscopic techniques.

REFERENCES:

1. Upadhyay., Upadhyay., Nath, “Biophysical Chemistry – Principles and Techniques”, Himalaya Publishing House, 2002.

2. Keith Wilson., John Walker., “Practical Biochemistry.”, Cambridge Press. 2000.

3. Douglas A. Skoog, F. James Holler, Timothy A. Nieman “Principles of Instrumental Ananlysis”, Brooks Cole Publication; 5th

Edn. (ed.) 1997.

4. R. Srinivasan., “Biomolecular Structure, Conformation, Function & Evolution”, vol. 1, (Ed.), 1981.

5. Willard and Merrit., “Instrumental Methods and Analysis”. CBS Publishers & Distributors. 6th Edn., 2005.

Page 42: B.Tech. (BIOINFORMATICS)

B.Tech. (BIOINFORMATICS) 2

3

REGULATIONS 2010

SCSX1014 OBJECT ORIENTED ANALYSIS AND DESIGN L T P Credits Total Marks

3 0 0 3 100

UNIT I INTRODUCTION 10 hrs.

Overview of object oriented language systems development – Object basics hierarchy – Object and identity – Static and dynamic binding – Object oriented SDLC.

UNIT II OBJECT ORIENTED METHODOLOGIES 10 hrs.

Rumbaugh et al.’s technique – Booch, Jacobson Methodologies – Patterns – Framework – Unified approach – UML – UML diagrams – UML dynamic modeling – UML extensibility – UML meta-model.

UNIT III OBJECT-ORIENTED ANALYSIS 10 hrs.

Use case model – Object analysis classification – Approaches for identifying classes – Classes responsibilities and collaborators – Identifying object relationships, attributes and methods.

UNIT IV OBJECT ORIENTED DESIGN 10 hrs.

Design process and design axioms – Designing classes – Access Layer – Object storage and object Interoperability – View layer – Designing interface objects.

UNIT V SOFTWARE QUALITY 10 hrs.

Software quality assurance – Testing strategies – Test cases – Test plan – Myers debugging principle – System usability and measuring user satisfaction.

REFERENCES:

1. Ali Bahrami, “Object oriented systems development using the unified modeling language”, McGraw- Hill International Editions

2. Grady Booch, James Rumbaugh, and Ivar Jacobson, “The Unified Modeling Language User Guide”, Addison Wesley, 1999.

UNIVERSITY EXAM QUESTION PAPER PATTERN

Max Marks : 80 Exam Duration : 3 Hrs.

PART A : 2 Questions from each unit, each carrying 2 marks 20 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks 60 marks

Page 43: B.Tech. (BIOINFORMATICS)

B.Tech. (BIOINFORMATICS) 2

4

REGULATIONS 2010

SBIX4001 BIOCHEMISTRY LAB L T P Credits Total Marks

0 0 4 2 100

List of experiments

1. Estimation of Glycine.

2. Estimation of Ascorbic Acid.

3. Estimation of Protein By Biuret Method.

4. Estimation of Protein By Lowry’s Method.

5. Estimation of Dna By Diphenylamine Method.

6. Colorimetric Assay for Salivary Amylase Activity.

7. Colorimetric Assay for Catalase Activity.

8. Estimation of Glucose By Anthrone Method.

9. Qualitative Analysis of Sugars.

10. Qualitative Analysis of Amino Acids.

SBIX4002 BIOLOGICAL DATABASE LAB L T P Credits Total Marks

0 0 4 2 100

List of experiments

Search through Entrez - Biological Databases (NCBI)

1. Genbank.

2. OMIM.

3. OMIA.

4. PUBMED.

5. MEDLINE.

Search through SRS

6. (EBI) -Nucleotide/ Genome Databases.

7. Protein Sequence Databases.

8. Structure databases.

9. Protein Pattern Databases.

Protein Structural databases

10. PDB.

11. MMDB.

12. SCOP.

13. CATH.

Protein motif and family databases

14. Prosite.

15. Pfam.

Molecular Visualization Tools

16. RasMol.

17. Cn3D.

18. MolMol.

Page 44: B.Tech. (BIOINFORMATICS)

PART A : 2 Questions from each unit, each carrying 2 marks 20 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks 60 marks

B.Tech. (BIOINFORMATICS) 2

5

REGULATIONS 2010

SBIX1006 MOLECULAR IMMUNOLOGY AND

IMMUNOINFORMATICS

L T P Credits Total Marks

3 0 0 3 100

UNIT I INTRODUCTION TO IMMUNE SYSTEM 10 hrs.

Introduction and overview of the immune System - Lymphatic System, Cells and Organs of the immune System

- Types Of Immunity & Dualities In The Immune System - Innate And Acquired, Self And Non-Self, Humoral And

Cell Mediated Immune Response, Active Immunity And Passive Immunity.

UNIT II IMMUNOGENS 10 hrs.

Immunogens - Antigens – Haptens - Epitope Or Antigenic Determinant - Antibody, Factors Influencing

Immunogenicity - Contribution Of The Immunogen - Contribution Of The Biological System - Method Of Administration

- Chemical Nature Of Immunogens - Types Of Antigens - T-Independent Antigens - T-Dependent Antigens -

Hapten-Carrier Conjugates - Antigenic Determinants - Superantigens - Determinants Recognized By The Innate Immune

System - Cross Reactivity, Adjuvants, Immunoglobulins - Structure And Function - General Functions Of

Immunoglobulins - Basic Structure Of Immunoglobulins - Structure Of The Variable Region - Immunoglobulin Fragments:

Structure/Function Relationships - Human Immunoglobulin Classes, Subclasses, Types And Subtypes - Structure And

Some Properties Of Ig Classes And Subclasses.

UNIT III CLASSES OF IMMUNOGLOBULINS 10 hrs.

Classes Of Immunoglobulins: Isotypes, All types And Idiotypes - Genetics Of Immunoglobulins - Light Chain

Gene Families - Heavy Chain Gene Family - Mechanism of DNA Rearrangements - Origin Of Antibody Diversity - T

Cell Receptor For Antigen - Major Histocompatibility Complex (MHC) and T-Cell Receptors - Role In Immune Responses

- Structure Of Class I And Class II MHC Molecules - Important Aspects of MHC - Cytokines – Monokines - Lymphokines

Interleukins and Interferons, Immunosuppression - Transplantation - Complement System.

UNIT IV ANTIGEN - ANTIBODY INTERACTIONS 10 hrs.

Antigen - Antibody interactions – Agglutination – Precipitation - Immunodiagnostic techniques – Immunoflurescence

– Immunodiffusion – Immunoelectrophoresis - ELISA – RIA - Monoclonal antibodies, Autoimmunity, Hypersensitivity

reactions - Tumor immunology, Primary and Secondary immuno deficiency disorders-AIDS – Immunization - Vaccines

UNIT V IMMUNOINFORMATICS 10 hrs.

Immunoinformatics – Bioinformatics in immunology – Strategies for better understanding of immune function –

Future of computational modeling and prediction systems in clinical immunology – Role of immunoinformatics in

personlised medicine – Epitope mapping – Vaccine design tools - Tools & databases in immunoinformatics – MHCPred,

TEPITOPE, IMGT, EPITOME.

REFERENCES:

1. Ivan M. Roitt (Author), Peter J. Delves, Essential immunology by Blackwell Scientific publications, Oxford, London, 2006.

2. Kuby Immunology. W. H. Freeman & Co. Fourth edition, 2000.

3. C.V. Rao. Immunology. Narosa Publishers. 2006.

4. Christian Shonbach, Shoba Ranganathan, Vladimir Brusic, Immunoinformatics. Springer ScienceBusiness Media. 2008.

UNIVERSITY EXAM QUESTION PAPER PATTERN

Max Marks : 80 Exam Duration : 3 hrs.

Page 45: B.Tech. (BIOINFORMATICS)

UNIVERSITY EXAM QUESTION PAPER PATTERN

Max Marks: 80

PART A : 2 Questions from each unit, each carrying 2 marks

PART B : 2 Questions from each unit with internal choice, each carrying 12 marks

Exam Duration: 3 hrs

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 2

6

REGULATIONS 2010

SBIX1007 BIOLOGICAL SEQUENCE ANALYSIS L T P Credits Total Marks

3 0 0 3 100

UNIT I INTRODUCTION TO SEQUENCES 10 hrs.

Introduction to sequence similarity, homology and alignment. Interpretation - Biological data to biological insight. Alignment methods - Local and Global alignment. Measures of sequence alignment. Gaps and gap penalty. Scoring schemes – PAM and BLOSUM substitution matrices. Log odds scoring system – Random and match model. Related exercises.

UNIT II PAIRWISE SEQUENCE ALIGNMENTS 10 hrs.

Pairwise sequence alignments – Dot matrix, Dynamic programming – Needleman,Wunsh algorithm, Smith-Waterman algorithm. Word methods – Heuristic FASTA, BLAST. Different flavors of BLAST – Interpreting the BLAST result – BLAST database. Significance of alignments. Pairwise alignment tools. Scoring a pairwise alignment – Distance, cost, similarity score. Exercises.

UNIT III MULTIPLE SEQUENCE ALIGNMENT 10 hrs.

Multiple sequence alignment – Meaning, goals, scoring a multiple alignment, different methods of multiple sequence alignment. Dynamic programming, Progressive, Iterative, Motif finding. HMM in Alignment. Algorithms – Dynamic programming, Feng – Doolittle, Profile alignment – Clustal W algorithm, Iterative profile alignment, Tools for multiple sequence alignment.

UNIT IV STRUCTURAL ALIGNMENT 10 hrs.

Structural alignment – DALI method, SSAP (Sequential structure alignment program), Combinatorial extension, Biological uses of alignment – Phylogenetic reconstruction, assessment of significance and credibility. Protein secondary structure prediction – basic concepts.

UNIT V PREDICTION METHODS ON SEQUENCES 10 hrs.

Prediction methods using DNA sequences – Michael Zhan’s Exon Finder, Gene scan, Morgan, Genie, Gene finder, Gene parser. Prediction methods using Protein sequences – PRPSEARCH, MOWSE, TGREASE, SAPS, BLOCKS, nnpredict, PredictProtein, PREDATOR, PSIPRED, JPRED, SOPMA

TOTAL NUMBER OF HOURS: 50

REFERENCES:

1. Teresa K. Attwood, David Parry-Smith. Introduction to Bioinformatics. Pearson Education. 2001.

2. Stephen Misener & Stephen A. Krawetz. Bioinformatics methods and protocols. Humana Press. 2000.

3. Des Higgins, Willie Taylor.Bioinformatics Sequence Structure & Data Banks. A practical approach. 2000.

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7

REGULATIONS 2010

SBIX1008 PERL PROGRAMMING L T P Credits Total Marks

3 0 0 3 100

UNIT I INTRODUCTION TO PERL 10 hrs.

Introduction to PERL and data types – scalars – a functional approach – constructing atgc.pl. tr/// function – text formatting – formatting numerical output with printf – trapping errors at run time – the s/// operator – the chop and chomp operators. Introduction and applications of Common Gateway Interfaces (CGI).

UNIT II INTRODUCTION TO ARRAYS AND HASHES 10 hrs.

Introduction to arrays and Hashes– split function – for each loop – advanced array operation – copying and creating arrays – populating arrays with sequential data – qw function – determination of the size of an array – counting arrays – accessing last element in an array – adding elements to the end of an array – adding elements – removing elements – altering elements – array slices – splicing array – sorting arrays – reversing arrays – arrays from strings. Creating Hashes-Adding elements to Hashes-deleting, sorting and printing hash elements.

UNIT III REGULAR EXPRESSIONS 10 hrs.

Perl regular expressions – special characters (+, *,?, [ ]) – regex operator – pattern modifier operator – conditional matching operator – range operator – match quantifiers – pattern comments.

UNIT IV CONTROL STATEMENTS 10 hrs.

Perl control statements – control structures – if statements – if-else – if-elsif – if-elsif-else – while loop – until loop –unless for loop – foreach loop – scoping of variables. BioPerl and its applications.

UNIT V INTRODUCTION TO PERL MODULES 10 hrs.

Introduction to Perl modules: Getopt: Long module and LWP:: Simple Module.

Files – operating files – file modes – file test operators – accessing files with , @ ARGV variable – accessing file with perl modules – extracting files – deleting files – accessing directories – Cwd module – system function – perl subroutines and functions.

REFERENCES:

1. Harshawardhan P. Ba, Perl programming for Bioinformatics, TATA McGRAW HILL publications, 2002.

2. Steven Holzner, PERL, Black Book, Dreamtech Publications, 2nd

Edition, 2001.

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60 marks

B.Tech. (BIOINFORMATICS) 2

8

REGULATIONS 2010

SMTX1012 STATISTICS & RANDOM PROCESSES L T P Credits Total Marks

3 0 0 3 100

UNIT I POINT ESTIMATION 10 hrs.

Properties of estimators, Unbiasedness, Efficiency, Consistency, Sufficiency – Rao – Blackwell theorem, C.R.Rao

Inequality – Methods of estimation: Method of Likelihood Estimation, Method of Minimum 2, Modified 2

- Method of moments.

UNIT II THEORY OF SAMPLING AND TEST OF HYPOTHESIS 10 hrs.

Test of Hypothesis – large sample – test of significance – Single mean, difference of means, single proportion, difference of proportions –Small sample – students ‘t’ test – single mean – difference of means – Fisher’s test or difference of variance – Chi square test – goodness of fit – independence of attributes.

UNIT III NON PARAMETRIC TESTS 10 hrs.

Sign test, Wilcoxon Signed Rank Test, Median test, Mann-Whitney U test, Kruskal-Wallis H test.

UNIT IV INTRODUCTION TO STOCHASTIC PROCESSES 10 hrs.

Definition, Classification of Stochastic processes, Random walk, Markov chains, Transition Probability Matrix, Graphical representation of Markov chains, Classification of states and chains- Simple Problems- Chapman Kolmogrov Theorem.

UNIT V MARKOV PROCESS 10 hrs.

Introduction to Markov Process- Poisson process-Postulates and properties-Birth and Death process-Hidden Markov Model – Introduction - Vitebi Algorithm, Forward and Backward Algorithm, Estimation algorithms

REFERENCES:

1. Veerarajan T, Probability, Statistics and Random Process, 4th

edition, Tata Mcgraw Hill, 2008.

2. Medhi J, Stochastic Processes, Second Edition, New Age International Publishers. 2002.

3. Stephen Bernstein Schaum’s Outline of Elements of Statistics I: Descriptive Statistics and Probability, McGraw-Hill, 1998.

4. Jerrold H zar, Biostatistical Analysis, 5th

edition, Prentice Hall, 2010.

5. Irivin Miller John E Freund, Probability and Statistics for Engineers, Prentice Hall, 1977.

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20 marks

60 marks

B.Tech. (BIOINFORMATICS) 2

9

REGULATIONS 2010

SCSX1015 DATABASE MANAGEMENT SYSTEMS L T P Credits Total Marks

3 0 0 3 100

UNIT I INTRODUCTION 10 hrs.

Data Bases- Need- Concepts- Architecture- data Independence.Data modeling: Entity-Relationship model: ER diagram-Aggregation-Weak Entity Sets, Mapping ER model to other data models.

UNIT II RELATIONAL MODEL 10 hrs.

Concepts- Integrity constraints, Relational Algebra, SQL Queries-data definition, manipulation, select statements, views in SQL

UNIT III RELATIONAL CALCULUS 10 hrs.

Tuple Relational calculus, Domain relational calculus, QBE language, Query processing and Query optimization.

UNIT IV RELATIONAL DATABASE DESIGN 10 hrs.

Armstrong’s Axioms-Design issues Decomposition –Normalization using Functional dependencies- Multi valued dependencies –join dependencies –Domain key normal form.

UNIT V DATABASE MODELS 10 hrs.

An overview of network model and hierarchical model object oriented data model- Objects definition and manipulation language-Object oriented databases- Object relational database.

REFERENCES:

1. R.Elmasri and S.B Navethe, “Fundamental of Data base systems” 2nd

edition, The Benjamin/cumming Pub.co, 1994.

2. A.Silberzcharts, H.F Korth &S.Sundharsan, “Data Base System Concepts“, 3rd edition, MGH 1997.

3. C.J.Data, “An Data Base System “, Galgotia, 1985.

4. C.M Ricardo, ” Data Base System Concepts Principles, Design and implementation “ Macmillan, 1990.

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20 marks

60 marks

B.Tech. (BIOINFORMATICS) 30 REGULATIONS 2010

SCSX1005 DATA STRUCTURES AND ALGORITHMS L T P Credits Total Marks

3 1 0 4 100

UNIT I INTRODUCTION TO ALGORITHMS & LINEAR DATA STRUCTURE 10 hrs.

Introduction to algorithms – Algorithms vs programs – Algorithmic notation – Performance analysis of an algorithm – Information and storage representation – Linear Data Structures – Lists – Array – Linked representation – Singly linked list – Cursor based linked list – Doubly linked list – Circular linked list – Applications of list – Stacks –Queues – Circular queue implementation – Priority queue implementation – Applications of stacks and queues.

UNIT II TREES 10 hrs.

Trees – Binary trees – Basic concepts – Implementation – Traversal –Applications – Binary search tree – Balanced search trees – B trees – AVL trees – Tries.

UNIT III GRAPHS 10 hrs.

Graphs – Basic concepts – Representation – Traversal - Minimum spanning tree – Applications –Networks–Single source shortest path algorithm – All pairs shortest path algorithm – Topological sort – String pattern matching techniques – Naive string algorithm – Rabin Karp algorithm.

UNIT IV SORTING & SEARCHING 10 hrs.

Internal sorting – Selection sort – Insertion sort – Bubble sort – Quick sort – Heap sort – Merge sort – Analysis of sorting techniques – External sorting – Tape sort – Disk sort – Searching – Quantity based searching – Linear search – Binary search – Density based searching – Hash search – Hashing – Hash function – Hashing methods – Collision resolution techniques.

UNIT V ALGORITHM DESIGN TECHNIQUES 10 hrs.

Greedy method – Divide and conquer strategy – Dynamic programming – Backtracking – Branch and bound – Approximation algorithms – Introduction to NP – Completeness.

REFERENCES:

1. Thomas H Corman, E Leiserson, Ron Rivest, ”Introduction to Algorithms” , MIT Press, 2nd

Edition, Jan 2001.

2. Alfred V Aho, J D Ullman, J E Hopcroft, ”Data Structures and Algorithms” , Addison Wesley Longman, 1983.

3. Mark Allen Weiss, ”Data Structures in C++”, Addison Wesley Longman, 2nd

Edition, 1998.

4. Horowitz E and Sahni S, “ Fundamentals of Computer Algorithms”, Computer Science Press, 1984.

Page 50: B.Tech. (BIOINFORMATICS)

B.Tech. (BIOINFORMATICS) 31 REGULATIONS 2010

SBIX4003 IMMUNOLOGY LAB L T P Credits Total Marks

0 0 4 2 100

1. ABO Blood Grouping.

2. Differential leukocyte count.

3. Widal – Agglutination test.

4. Radial Immunodiffusion.

5. Ouchterlony Double Immuno Diffusion – Antibody titration.

6. Rocket Immunoelectrophoresis.

7. Immunoelectrophoresis.

8. ELISA – Quantification of Immunoglobulins.

SBIX4004 PERL PROGRAMMING LAB L T P Credits Total Marks

0 0 4 2 100

1. Program for Basic Arithematic operations.

2. Program using Translation (~tr///), substitution (~S///), concatenation operations.

3. Program using chop, chomp, and reverse complement.

4. Program for calculating the GC content.

5. Basic array operations-I: Creating, counting and manipulating an array, push, pop, shift, unshift functions.

6. Basic array operations-II: Split, join, splice, sort, reverse, reverse sort.

7. Program for Looping and control statements.

8. Perl regular expression using +, * , ? , [ ] characters.

9. File Handling

10. Subroutine.

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60 marks

B.Tech. (BIOINFORMATICS) 32 REGULATIONS 2010

SCSX1056 ORACLE & SQL L T P Credits Total Marks

3 0 0 3 100

UNIT I INTRODUCTION TO RDBMS & ORACLE 10 hrs.

Overview of RDBMS – DBMS – Database Models – RDBMS – Codd’s rule – Introduction to Oracle – Tools – Oracle data types – DDL, DML, TCL – Introduction to Integrity Constraints – Domain Integrity – Entity Integrity – Referential Integrity.

UNIT II QUERIES AND TABLES 10 hrs.

Different Select Statements – Operations in SQL * Plus – SQL * Plus functions – Set Operators – Simple Join – Table aliases – Self Join – Outer Join – Usage of Subqueries – Multiple Sub Queries – Correlated sub queries – Locks and Table Partitions – Row level – Table level lock – Table partitions.

UNIT III DATA BASE OBJECTS 10 hrs.

Synonym – Sequences – View- Index – OODBMS Vs DBMS – Concepts of Object oriented programming – Features of OOPS – Advantages of Object orientation – Abstract data types – Object views – Varying arrays – Nested tables – Object tables – Object views with REFs.

UNIT IV INTRODUCTION TO PL/SQL 10 hrs.

Advantages – Architecture – PL/SQL Block – Data types and Usage – User – defined data types – Control Structures – Concept of Error Handing.

UNIT V CURSOR MANAGEMENT AND DATABASE TRIGGERS 10 hrs.

Static Cursors – REF Cursors Subprograms: Procedures – Functions – Packages Database Triggers – Creating Triggers – Types – Built-in-packages

REFERENCES:

1. Scott Urman, “ Oracle & PL/SQL “, Tata Mgraw Hill, 2002

2. Steven Feuesrstein with Bill Pribyl, “ Oracle PL/SQL Programming “, O’Reill 4th

Edition, 2005

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Exam Duration: 3 hrs.

20 marks

60 marks

B.Tech. (BIOINFORMATICS) 3

3

REGULATIONS 2010

SBIX1009 PHYLOGENETIC ANALYSIS L T P Credits Total Marks

3 0 0 3 100

UNIT I MOLECULAR BASIS OF EVOLUTION 10 hrs.

Molecular basis of evolution – Evolutionary tree of life – Mechanisms of evolution – Mutation and codon usage. Evolutionary changes in amino acid sequences – Differences and proportion – Amino acid substitution matrix – Mutation rate and substitution rate. Evolutionary changes in DNA sequences – Nucleotide differences – Estimation of number of nucleotide substitutions – Gamma distances – Numerical estimation – alignment – Handling of sequence gaps in the estimation of evolutionary distances.

UNIT II NUCLEOTIDE SUBSTITUTIONS AND PHYLOGENETIC TREES 10 hrs.

Synonymous and Non – Synonymous Nucleotide substitutions – Evolutionary pathway methods – Methods based on Kimura’s 2 – Parameter Model – Nucleotide substations at different codon positions – Likelihood methods with codon substitution models. Phylogenetic trees – Types of phylogenetic trees – Topological differences – Tree building methods.

UNIT III PHYLOGENETIC INFERENCE – DISTANCE METHODS 10 hrs.

Phylogenetic Inference – Distance methods – UPGMA – Minimum Evolution method – Neighbor Joining method – Distance measures to be used for phylogenetic reconstruction – Maximum Parsimony methods – Finding MP trees

– Strategies for searching – Consensus trees – Estimation of branch lengths – Weighted parsimony – Maximum Likelihood methods – Compuational procedure – Models – Protein likelihood – Theoretical foundation – Parameter estimation

UNIT IV ACCURACIES AND STATISTICAL TESTS 10 hrs.

Accuracies and Statistical tests – Optimization principle and topological errors – Interior branch tests – Boostrapping and Jack-knifing. Advantages and disadvantages of different tree building methods – Molecular clocks – Hypothesis – Relative rate tests – Linearized trees – Ancestral nucleotide and amino acid sequences – Bayesian approach – convergent and parallel evolution

UNIT V GENETIC POLYMORPHISM AND SOFTWARE TOOLS 10 hrs.

Genetic Polymorphism and Evolution – Evolutionary significance – analysis of allele frequency data – DNA polymorphism – Statistical tests – Population trees from genetic markers - Analysis of RAPD data – Software Tools – TreeView – MrBayes, PAUP, PHYLIP, Spectronet, HYPHY, ModelTest, Mesquite, MEGA.

REFERENCES:

1. Inferring Phylogenies by Joseph Felsenstein, Sinauer, 2004.

2. Bioinformatics Practical guide by Baxevanis and Oulette, Wiley India Pvt Ltd., 2004.

3. Biological sequence Analysis by Durbin, Cambridge University Press, 1999.

4. Bioinformatics sequence Analysis by David Mount, Brooks/Co le, 2004.

5. Molecular Evolution and Phylogenetics by Masatoshi Nei Oxford University, 2000.

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B.Tech. (BIOINFORMATICS) 3

4

REGULATIONS 2010

SBIX1010 GENOMICS & PROTEOMICS L T P Credits Total Marks

3 0 0 3 100

UNIT I HUMAN GENOME PROJECT AND GENOMIC DATABASES 10 hrs.

Human Genome Project – Goals - Brief outlook of various genome projects and their outcome. Completely sequenced eukaryotic genomes – Saccharomyces cerevisiae, Caenorhabditis elegans, Drosophila melanogaster, Arabidopsis thaliana, Homo sapiens.Ethical, Legal, Social Issues of HGP - IPR & Patents.

Genomic databases – Flybase, MGD, SGD, Wormbase, Ensembl, and TIGR. Mutation databases – MITSNP, HGBASE, and OMIMALLELE. Mitochondrial databases – GOBASE, MITOP, MITODAT, Mitochondriome, Human MitBase.

UNIT II MAPPING GENOMES BY GENETIC TECHNIQUES 10 hrs.

Mapping genomes by genetic techniques – Linkage Analysis, Human Pedigree Analysis.Mapping genomes by physical techniques – Restriction mapping, FISH, STS. Complexities and pitfalls of mapping. Assigning gene function by experimental analysis – Gene inactivation, Gene over- expression, Reporter genes, Reverse genetics. Gene identification tools – GENEID, SELFID, MZEF, and GeneParser.

UNIT III DNA MICROARRAY AND GENOMICS IN BIOPHARMACEUTICAL INDUSTRY 10 hrs.

DNA Microarray –Brief overview of various microarray data analysis methods. From Expression data to Pathways – SAGE. Application of microarray: expression analysis. Role of genomics in Drug discovery and development-peptide nucleic acid technology. Genomics in Biopharmaceutical Industry Functional Genomes-Pharmacogentics-Genomics in relation to molecular Diagonosis- Molecular Therampeutic technologies. Gene Therapy-Gene Therapy-New Targets for drug discovery.

UNIT IV INTRODUCTION TO PROTEOMICS 10 hrs.

Introduction to Proteomics – Proteomics Vs Genomics – Classification of Proteomics Proteome projects and their significance.Proteomic Technologies – Protein separation technologies: 2D-PAGE for proteome analysis, Liquid chromatography. Protein detection – Protein identification and characterization: Mass spectrometry – EMI – MS, Tandem MS, TOF – MS, - HPLC: Peptide Mass Fingerprinting, Antibody assays, Analysis of peptides. Protein Quantification: Gel based – Gel free methods: ICAT and COFRADIC.

UNIT V FUNCTIONAL PROTEOMICS 10 hrs.

Functional Proteomics – Application of nanotechnology for proteomics: Nanoparticle barcode – Protein expression profiling – Protein-Protein interactions: Yeast Two Hybrid System, Protein affinity chromatography, Phage display. Protein Biochip Technology, Protein biochips for molecular diagnostics and high throughput expression,.Applications of Proteomics – Pharmaceutical Applications: role of proteomics in drug discovery, proteomics in neuroscience, Drug design based proteomics, Protein knockout – Phosphoproteomics, Glycoproteomics, Organellar proteomics – Applications in Human Medicine – Future of Proteomics. Case study: Application in diagnosis of Alzheimer’s disease. Bioinformatics tools and databases for proteomics

REFERENCES:

1. T.A. Brown., Genomes., John Wiley & Sons, 2002.

2. David W. Mount., Bioinformatics – Sequence & Genome Analysis., CBS Publishers, 2003.

3. Proteomics: From Sequence to Function by S.Pennington and M.Dunn, 2000.

4. Introduction to Proteomics: A tool for new Biology by Daniel C.Leibler, 2002.

5. S.Sahai, Genomics and Proteomics, " Functional an Computational Aspects ",Pienum Publications, 1999.

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60 marks

B.Tech. (BIOINFORMATICS) 3

5

REGULATIONS 2010

SBIX1011 INTRODUCTION TO QUANTUM CHEMISTRY L T P Credits Total Marks

3 1 0 4 100

UNIT I INTRODUCTION 10 hrs.

Introduction – chemistry as a branch of mechanics – operators – definition and examples – algebra of operators – basic properties – linear operators – eigen function and values – Hermitian operator – unary operator – commutators.

UNIT II QUANTITATIVE PROPERTIES 10 hrs.

Wave properties of EM radiation – Blackbody radiation – Wien’s law – Raleigh-Jeans’s law – Planck’s law – photoelectric effect – quantisation of matter – drawbacks of old quantum theory – Bohr’s model for Hydrogen atom – Matter waves:- group velocity – relation between group velocity and phase velocity – de-Broglie’s relation – uncertainty principle – significance.

UNIT III POSTULATES OF QUANTUM MECHANICS 10 hrs

Postulates of quantum mechanics – Hamiltonian – Schrodinger wave equation – importance of Schrodinger equation – physical interpretation of wave function – properties of wave function – normalization of wave functions – three dimensional wave equation – time dependent and time independent.

UNIT IV QUANTITATIVE MODELS 10 hrs.

Free particle in one dimension – particle in a one dimensional box – probability and probability density – orthogonality – particle in three dimensional box – energy levels in cubic box – Particle in a ring – Particle in a sphere.

UNIT V SCHRODINGER EQUATION 10 hrs.

Schrodinger equation for hydrogen atom – solution of equation – solution of equation – solution of R

equation – angular momentum – shape of orbitals.

REFERENCES:

1. Introduction to quantum chemistry – M. Satake, Y. Mido, H. Yasuhisa, S. Taguchi, M.S.Sethi, S.A.Iqbal – Discovery Publishing House, New Delhi, 2003.

2. Introductory Quantum Chemistry – A.K. Chandra – Tata McGraw Hill, New Delhi, 2001.

3. Quantum Mechanics – S.P.Singh, M.K.Bagde – S. Chand and Co, New Delhi, 1983.

4. Quantum chemistry by R.K.Prasad, New Age Science, 2006.

5. Quantum mechanics by Manas Chanda, Tata McGraw Hill, 2006.

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B.Tech. (BIOINFORMATICS) 3

6

REGULATIONS 2010

SBIX1012 PRINCIPLES OF MEDICINAL CHEMISTRY L T P Credits Total Marks

3 0 0 3 100

UNIT I OVERVIEW OF MEDICINAL CHEMISTRY 10 hrs.

Definion, Drug, Sources of drugs-plant, animal, synthetic, Recombinant technology. Nomenclature of drugs-INNs, BAN, USAN. History and their role in formulation development & therapeutics and clinical setting, Route of Administration-Oral, parentral, Rectal, Topical administration, Inhalation.

UNIT II PHARMACOKINETICS 10 hrs.

Absorption, distribution, metabolism (biotransformation) and excretion (elimination) of drugs. Physicochemical, biological and pharmaceutical factors altering biopharmaceutical performance of drugs. Passage of drugs across biological barrier (passive diffusion, active transport, facilitated diffusion and pinocytosis). Factors influencing absorption- physiochemical, physiological and pharmaceutical. Drug distribution in the body, plasma protein binding.

UNIT III PHARMACODYNAMICS 10 hrs.

Introduction, Enzymes-structure and function, Inhibitors acting at the active site of an enzyme, Inhibitors acting at allosteric binding sites, Transition-state analogues, and suicide substrates, Isozyme selectivity of inhibitors, Medicinal uses of enzyme inhibitors, Enzyme kinetics. Receptors- structure and function, the design of agonists, antagonists, partial agonists, inverse agonists, receptor types& subtypes.

UNIT IV PHARMACOLOGICAL EFFECT OF DRUGS 10 hrs.

Classification- antibacterial agents- Mechanism of antibacterial action- antimetabolites- sulfonamides- application of sulfonamides- penicillin’s-structure and mechanism of action, anticancer agent and antiulcer agents- Advantages and disadvantages- structure and mechanism of drug action.

UNIT V DRUG DISCOVERY 10 hrs.

Devising a research strategy, challenges in drug discovery, development of new drugs, legal aspects of product protection, getting drug to market.

REFERENCES:

1. An Introduction to Medicinal Chemistry-Graham L.Patrick, 2009.

2. Camille.G.Wermuth, The Practice of Medicinal Chemistry- Prestwick Chemical Inc, 2003

3. Wilson & Gisvold’s, Text book of Organic Medicinal and Pharmaceutical Chemistry, Lippincott Williams, 2003

4. Frank.D.king, Medicinal Chemistry- Principles and Practice, Marcell Dekker, 2002

5. K.D.Tripathi, Essentials of Medicinal Pharmacology, Jaypee Brothers, 2004

6. S.D Seth, Text book of pharmacology, Elsevier India Pvt Ltd., 2008