Bioinformatics and Biostatistics

Bioinformatics - 2 Credits

Unit I

Bioinformatics basics: Computers in biology and medicine; Database concepts; Protein and nucleic acid databases; Structural databases; Computational tools for DNA sequence analysis; MEGA; Resources on RCSB. Databases and search tools: Biological background for sequence analysis; Identification of protein sequence from DNA sequence; Searching of databases similar sequence; The NCBI; Publicly available tools; Resources at EBI; Resources on the web; Database mining tools.

Unit II

DNA sequence analysis: The gene bank sequence database; Submitting DNA sequence to the databases (NCBI-BankIt, SEQUIN) and database searching; Sequence alignment; Pair wise alignment techniques; Multiple sequence analysis; Multiple sequence alignment.Peptidomimetics: Introduction, classification; pseudopeptides, Biologically active template; Amino acid replacements; CADD techniques in peptidomimetics; Development of non peptide peptidomimetics.

Biostatistics - 2 Credits

Unit III

Statistics: Introduction, its role and uses; Collection; Organization; Graphics and pictorial representation of data; Measures of central tendencies and dispersion; Coefficient of variation. Probability: Basic concepts; Common probability distributions and probability distributions related to normal distribution; Sampling: Simple random and other sampling procedures; Distribution of sample mean and proportion.

Unit IV

Estimation and Hypothesis testing: Concepts of hypothesis testing and types of errors; Student-t and Chi square tests; Sample size and power; Experimental design and analysis of variance, Correlation and regression: Graphical presentation of two continuous variables; Multiple and partial correlations; Linear regression; Regression line; Coefficient of determination; Interval estimation and hypothesis testing for population slope; Experimental design in clinical trials; Parallel and crossover designs; Statistical test for bioequivalence; Dose response studies; Statistical quality control

Practicals- Bioinformatics

• 1. Genbank

  2. Swissprot

  3. RCSB

  4. Exon, intron indentification

  5. Splice site prediction

  6. Prediction of protein secondary structure

  7. Tertiary structure prediction – homology modeling

  8. Introduction to structure visualization by Cn3D, Rasmol etc.

Recommended books For statistics

• 1. P.S.S. Sundar Rao, P.H.Richard, J.Richard, An introduction to Bio-statistics, Prentice Hall of India (P) Ltd., New Delhi, 2003.

  2. Gupta S.P, Statistical Methods, Sultan Chand & Sons, New Delhi, 2005.

  3. Jerrold H. Zar, Bio Statistical Analysis, Tan Prints(I) Pvt. Ltd., New Delhi, 2003.

  4. Goulden, Methods of Statistical Analysis, Asia Publishing Co., New Delhi, 1962.

For bioinformatics

• 1. David W. Mount, Bioinformatics: Sequence and Genome Analysis 2nd Edition, CSHL Press, 2004.

  2. Baxevanis and F. B. F. Ouellette, Bioinformatics: a practical guide to the analysis of genes and proteins, 2nd Edition, John Wiley, 2001.

  3. Jonathan Pevsner, Bioinformatics and Functional Genomics, 1st Edition, Wiley-Liss, 2003.

  4. P. E. Bourne and H. Weissig, Structural Bioinformatics, 2nd Edition, Wiley, 2008.

  5. C. Branden and J. Tooze, Introduction to Protein Structure, 2nd Revised Edition Garland

     1. Publishing, 1998.

     2. Youtube Links 

     3. 1. MEGA Demo 

     4. 2. A pratical Guide to NCBI BLAST

     5. 3. BLAST RESULTS 

     6. 4. NCBI HOME ON YOUTUBE must watch

     7. 5. Protein Databases 

     8. 6. Shomu's Biology (Almost every topic is covered) 

     9. 7.