OBT552 Syllabus - Basics Of Bioinformatics - 2017 Regulation - Open Elective | Anna University

OBT552 Syllabus - Basics Of Bioinformatics - 2017 Regulation - Open Elective | Anna University

OBT552	BASICS OF BIOINFORMATICS	L T P C

3003

UNIT I	BIOLOGICAL DATA ACQUISITION	9

The form of biological information. Retrieval methods for DNA sequence, protein sequence and protein structure information.

UNIT II	DATABASES	9

Format and Annotation: Conventions for database indexing and specification of search terms, Common sequence file formats. Annotated sequence databases - primary sequence databases, protein sequence and structure databases, Organism specific databases

UNIT III	DATA PROCESSING	9

Data – Access, Retrieval and Submission: Standard search engines; Data retrieval tools – Entrez, DBGET and SRS; Submission of (new and revised) data; Sequence Similarity Searches: Localversus global. Distance metrics. Similarity and homology. Scoring matrices.

UNIT IV	METHODS OF ANALYSIS	9

Dynamic programming algorithms, Needleman-wunsch and Smith-waterman. Heuristic Methods of sequence alignment, FASTA , and PSI BLAST. Multiple Sequence Alignment and software tools for pairwise and multiple sequence alignment

UNIT V	APPLICATIONS	9

Genome Annotation and Gene Prediction; ORF finding; Phylogenetic Analysis : Comparative genomics, orthologs, paralogs. Genome analysis – Genome annotation

TOTAL: 45 PERIODS

TEXT BOOKS:

1. Introduction to Bioinformatics by Arthur K. Lesk , Oxford University Press.
2. Algorithms on Strings, Trees and Sequences by Dan Gusfield, Cambridge University Press.
3. Biological Sequence Analysis Probabilistic Models of proteins and nucleic acids by Durbin, S.Eddy, A.Krogh, G.Mitchison.
4. Bioinformatics Sequence and Genome Analysis by David W. Mount, Cold Spring Harbor Laboratory Press.
5. Beginning Perl for Bioinformatics: An introduction to Perl for Biologists by James Tindall, O‟Reilley Media.

REFERENCES:

1. Bioinformatics The Machine Learning Approach by Pierre Baldi and Soren Brunak.