Diploma in Genomics

Subject title : GENOMICS
Course number : 07BIC07 Number of lecture hours: 5
Subject description :
This paper deals with genome map, comparative genomics, structural genomics, functional
genomics and regulation.
Goals:
To make the students to familiar with genome map, comparative genomics, structural and
functional genomics.
Objectives:
Understand the genome architecture and extracting information like gene function, gene
regulation, protein evolution and targets for drug designing
UNIT - I
Definition of Genome, Genome sequencing, Genome map: Types of Genome maps and
their uses, High and low-resolution map, Map elements, Polymorphic markers, Types of
maps: Cytogenetic, Linkage map, Transcript map, Physical map, Comparative map,
Integrated map, STS content maps, Map repositories: NCBI - Entrez Human genome map
viewer, OMIM - Online Mendelian Inheritance in Man, Linkage map resources: CEPH
reference pedigree, CHLC - Cooperative human linkage center, Radiation hybrid map
resources. Practical uses of genome maps: Locating genomic regions, Target identification,
Arrangement of genes, SNP diagnosis, Positional specific cloning,
UNIT - II
Genome Anatomies The anatomy of the Eukaryotic Genome -The special features of
metaphase chromosomes, where are the genes in the genome? Families of genes,
pseudogenes - Eukaryotic organelle genomes, Repetitive DNA content of the human
genome.
Transcriptomes and Proteomes
Genome Expression in outline; The RNA content of the Cell- the Transcriptome - yeast
and human; The Protein content of the cell - the link between the Transcriptome and the
Proteome.
UNIT - III
Annotation of the Genome: Structural annotation (Locating coding regions
and other structural elements of the gene). Various approaches in gene prediction:
ORF prediction, Gene prediction in prokaryotes and eukaryotes, Hidden Markov Model,
Pattern discrimination, Evaluation of gene prediction methods, Prediction of promoter
sequences, Functional annotation: (Prediction of gene function), Employing the similarity
in the sequence, gene family and metabolic pathway. Employing the conserved domain,
Profile and motif comparison, EST Comparison. Analysis of Human Genome.
UNIT - IV
Comparative Genomics:
Purpose and Methods of comparison, Tools for genomic comparison: Applications of
Comparative Genomics, Reconstruction of metabolic pathway, Predicting regulatory
elements, Identifying targets, examination of domain function, analysis of conserved
strings.
Genome projects and Model Organism research -Yeast; Drosophila; C. elegans; and Mouse
- a comparative analysis. Comparative genomics as an aid to gene mapping and in the
study of human diseases.
UNIT - V
Functional Genomics:
Gene expression analysis by cDNA micro arrays, SAGE, Strategies for generating ESTs
and full length inserts; EST clustering and assembly; EST databases (DBEST, UNIGENE);
Expression and regulation of entire set of genes, Sporulation Vs Vegetative condition in
yeast and Bacillus.