ZO-5038 

Course Outcomes

After completing the course, the students will be able to:

CO-1: Students shall be able to comprehend, recall, and explain computer, various structure of input and output devices, digital techniques concepts of programming, languages and other computer aspects.

CO-2: Students shall gain the skills necessary to perform database search and alignment, structure visualization and prediction, and to use bioinformatics tools and resources.

CO-3: To learn the core areas of Bioinformatics like sequence analysis, phylogenetic trees, genomics, proteomics.

CO-4: To explore the students applied areas of Bioinformatics like homology modelling and simulation methods.

CO-5: To provide knowledge about predicting the structure of biomolecules, structure prediction and validation.

Syllabus

Unit 1.   

Basic of Computer: History and development of computers; generations of computers; (I, II, III, IV and V). Input-output devices. Languages, flow charts, Operating Systems, Machine-level, assembly, and high-level languages.Memory: - Primary memory or main memory; magnetic core memory, semi-conductor memory, RMA, ROM, PROM, EPROM, EEPROM. Secondary memory or auxiliary memory or storage devices; Hard disk, diskette, magnetic tape, ZIP, devices, digital tape, CD-ROM, DVD, virtual, memory, cache memory. Operating Systems DOS, windows 98/XP/VISTA, UNIX/LINUX, Mac OS, VMS. Modern computers: Workstations, parallel processing computers, supercomputers. Internet and related programmes WWW, HTML, HTTP, telnet, FTP, computer domain.

Unit 2.  

Introduction to Bioinformatics: Scope of bioinformatics - history, scope of bioinformatics in research, business and employment opportunities. Human genome project and online Mendelian inheritance in man (OMIM).Bioinformatics in India- current status and future implication.Bioinformatics and its relation with molecular biology. Examples of related Tools (FASTA, BLAST, BLAT, RASMOL), databases (GENBANK, PubMed, PDB) and software (RASMOL, Ligand Explorer).

Unit 3.   

Biological Database and its Types: Introduction to data types and Source. Population and sample. Classification and Presentation of Data. Quality of data, private and public data sources.General Introduction of Biological Databases; Nucleic acid databases (NCBI, DDBJ, and EMBL). Protein databases (Primary, Composite, and Secondary). specialized Genome databases: (SGD, TIGR, andACeDB).Structure databases (CATH, SCOP, and PDBsum)

Unit 4.

Data Storage and retrieval: Flat files, relational, object-oriented databases and controlled vocabularies. File Format (GenBank, DDBJ, FASTA, PDB, SwissProt). Introduction to Metadata and search; Indices, Boolean, Fuzzy, Neighboring search.The challenges of data exchange and integration. Ontologies, interchange languages, and standardisation efforts.General Introduction to XML, UMLS, CORBA, PYTHON and OMG/LIFESCIENCE.

Unit 5. 

Sequence Alignments and Visualization: Introduction to Sequences, alignments and Dynamic Programming. Local alignment and Global alignment (algorithm and example).Pairwise alignment (BLAST and FASTA Algorithm) and multiple sequence alignment (Clustal W algorithm).Methods for presenting large quantities of biological data: sequence viewers (Artemis,SeqVISTA), 3D structure viewers (Rasmol, SPDBv, Chime, Cn3D, PyMol).