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Bioinformatics, Computer applications & Quantitative Biology [1]

Paper Code: 
ZOL 322
Credits: 
4
Contact Hours: 
60.00
Max. Marks: 
100.00
Objective: 

Course objectives:

This course will enable the students to -

  1. Furnish knowledge and awareness about the basic principles and concepts of Bioinformatics, Mathematics and Computer.
  2. Illustrate the application of Bioinformatics Computer Applications, Mathematics and Biostatistics in biology.

 

Course Outcomes (COs):

Course

Learning outcomes

(at course level)

Learning and teaching strategies

Assessment Strategies

Paper Code

Paper Title

ZOL 322

Bioinformatics, Computer Applications & Quantitative Biology

 

Students will –:

CO67:  Provide insight into the key concept and analytical methods used in bioinformatics.

CO68: Acquire knowledge about sequence similarity search methods like DOT PLOT, heuristic and dynamic method for sequence analysis and alignment.

CO69: Assessing basics of bioinformatics in Phylogenetic analysis and prediction of structure of Proteins and nucleic acids using it.

CO70: Deduce application of mathematics in biology basic rules of Matrices and vectors, Exponential functions, Periodic Functions, Differentiation and Integration.

CO71: Expedite foundation on statistical methods to enable students to compute and interpret biological parameters statistically.

Approach in teaching:

Guest lectures, Reading assignments, Demonstration, PowerPoint presentation

 

Learning activities for the students:

Self-learning assignments, Effective questions, Simulation, Seminar presentation, Giving tasks

 

Class test

Semester end examinations,

Quiz

Assignments,

Presentation

Surprise test

Open book test

 

12.00
Unit I: 
UNIT I
  • The Genbank sequence database
  • Structure database
  • Sequence analysis
  • Sequence Alignment and database searching
  • Practical aspects of multiple sequence alignment

 

12.00
Unit II: 
UNIT II
  • Phylogenetic analysis
  • Information retrieval from Biological database
  • NCBI data model
  • Predictive methods using Protein sequences
  • Predictive methods using Nucleotide sequences
  • ACEDB: A database for genome information
  • Submitting DNA sequence to the database

 

12.00
Unit III: 
UNIT III

Computer Basics

  • MS-Office
  • Operating Systems (Unix andDOS)
  • Hardware and Software
  • Multimedia
  • Network Concepts (LAN, WAN)
  • Internet
  • Web Servers, WebAccess
  • Security
  • HTML,HTTP

 

10.00
Unit IV: 
UNIT IV
  • Matrices and vectors (General idea – addition, subtraction, Scalar multiplication, multiplication of matrices)
  • Exponential functions (definition & Graph)
  • Periodic Functions (definition & Graph)
  • Differentiation (Rules of differentiation)
  • Integration (Rules of indefinite & definite integration)

 

 

14.00
Unit V: 
UNIT V
  • Central tendency-Mean, median and mode
  • Graphical & diagrammatic representation (pie chart, bar diagram, histogram, frequency polygon, frequency curve)
  • Measures of dispersion, range, Q.D, standard deviation and coefficient of variation
  • Probability distribution(Elementary idea about)
  • Elementary idea of sampling distribution
  • Standarderror
  • Tests of significance- t-test (1 population & 2 population test), Chi-square (independence of attributes)
  • Simple correlation (Karl Pearson method) & regression
  • ANOVA ( 1 way & 2 way classification)

 

Essential Readings: 
  • Essential Bioinformatics, JinXiong, John Wiley and Sons. 2006.
  • Introduction to Bioinformatics, A Teresa and D P Smith, Prentice Hall, 1999.
  • Statistical Methods in Biology, N T J Bailey, Cambridge University Press, 1995.
  • Statistics for Biologist, R C Campbell, Cambridge University Press, 1989.  
  • Bioinformatics, A practical Guide to the Analysis of Genes and Proteins, (2nd edition), A D Baxevanis, and B F Ouellette, John Wiley and Sons, 2002.

 

References: 

SUGGESTED READINGS:

  • Fundamentals of Biostatistics, Khan, Publishing Corporation, 1999
  • Biostatistics: A Foundation for Analysis in Health Sciences, (6th edition), W W Daniel, John Wiley and Sons Inc., 1995.
  • Instant notes, Bioinformatics, Westhead, Parish, and Twyman, (1stedition), Bios Scientific Publishers Ltd., 2003.
  • Introduction to Bioinformatics, A M Lesk, Oxford University Press, 2002.
  • Molecular databases for Protein sequence and Structure studies, J A Sillince and M Sillince, Springer Verlag, 1991
  • Practical statistics for Experimental Biologists, A C Swardlaw, John Wiley and sons Inc., 1985
  • Sequence Analysis Primer, Gribskov and Devereux, Stockton Press, 1989

 

E-RESOURCES:

 

JOURNALS:

  •  Journal of Bioinformatics and Computational Biology. ISSN (print): 0219-7200 | ISSN (online): 1757-6334.
  • BMC Bioinformatics, Publisher: BioMed Central ltd. ISSN: 1471-2105.

 

Academic Year: 
2022-2023 [5]

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Source URL: https://zoology.iisuniv.ac.in/courses/subjects/bioinformatics-computer-applications-quantitative-biology-6

Links:
[1] https://zoology.iisuniv.ac.in/courses/subjects/bioinformatics-computer-applications-quantitative-biology-6
[2] https://epgp.inflibnet.ac.in/Home/ViewSubject?catid=2rAs1Puvga4LW93zMe83aA==
[3] https://www.ncbi.nlm.nih.gov/
[4] https://vlab.amrita.edu/index.php?sub=3&brch=311
[5] https://zoology.iisuniv.ac.in/academic-year/2022-2023