JAWAHARLAL NEHRU TECHNOLOGICAL UNIVERSITY HYDERABAD

Course Objective

This subject is design to impart fundamental knowledge on the principles of

bioinformatics

Course Outcomes

Upon completion of the course the student able to understand

• Foundation of bioinformatics
• Sequence comparisons methods
• Genomic applications
• Proteomic and metabolic applications.

UNIT - I

Foundations of bioinformatics 1.1 Bioinformatics- a historical perspective 1.2 Bioinformaticss data- nucleic acid sequence, protein sequence, protein structure, genome variation data, gene expression data, proteomic data, metabolic pathways and networks 1.3 Bioinformatics tools and resources- free online tolls, downloadable free tools, software pakags, bioinformatics web portals 1.4 Role of internet in Bioinformatics.

UNIT - II

Sequence comparison methods 2.1 Basics of sequence alignment: Match, mismatch, gaps, scoring an alignment (gap penalties (linear & affine gap penalties), sequence relationships (sequence identity, similarity, homology, orthologs, paralogs & xenologs) 2.2 DNA Vs protein sequence alignment (permissible replacement, similarity score, scoring matrices (PAM & BLOSUM) 2.3 multiple-sequence alignment (MSA): significance of MSA

UNIT - III

Genomic Applications: 3.1 Bioinformatics for genome sequencing, first and next generation methods of genome sequencing, de-novo and reference based genome sequencing, genome assembly (reads, contigs &scaffolds) 3.2 Transcript- profiling: expression microarrays (gene array& oligo array), transcriptome sequencing and RNA- seq analysis small RNA sequencing and analysis

UNIT - IV

4.1 Genome maps an markers: identification of molecular makers (SSR, STS & SNP markers), linkage Vs physical maps, displaying genome annotation using genome browsers 4.2 Medical application of bioinformatics –understanding diseases and identification of disease genes, disease diagnostics, overview of drug discovery, pharmacogenomics.

UNIT - V

Proteomic and metabolomic applications: 5.1 Protein profiling (2D gels, protein fingerprinting & identification), protein structure analysis 5.2 Protein structure: structure visualization 5.3 Protein: secondary and tertiary structure prediction (homology modelling)

R17 B. PHARMACY III YEAR

Recommended Books (Latest edition):

• 1. Bioinformatics by B. G. Gurran, R. J. Walker, S.C. Bhatia. CBS Publishers.
• 2. Bioinformatics: Skills & applications by Rastogi, CBS Publishers
• 3. Bioinformatics: Sequence & genome analysis by mount, CBS Publishers
• 4. Bioinformatics and bioprogramming by CN Chaveli
• 5. Bioinformatics (Basics, alogerthmas and applications by Ruchi singh and Richa Sharma
• 6. Essential Bioinformatics Jinxiong R17 B. PHARMACY III YEAR