S.no

Details of the Unit

No.of Teaching Hours

Reference Book No.s

1.

UNIT I : DNA MICROARRAY:The Technical Foundations, Why are MicroArray Important? What is a DNA MicroArray. Designing a MicroArray Experiment: The Basic steps, Types of MicroArray, NCBI and MicroArray Data Management, GEO (Gene Expression Omnibus), MAML, The benefits of GEO and MAML

12

1,2

2.

UNIT II : MICROARRAY DATA & ITS VISUALIZATION:The Promise of MicroArray Technology in Treating Disease. MicroArray Data, Preprocessing the Data, Measuring Dissimilarity of Expression Pattern, Distance Motifs andDissimilarity measures, Visualizing MicroArray Data; Principal Component Analysis, PCA and MicroArray Data. K-Means Clustering, Hierarchical Clustering, Self Organization Maps (SOM).

12

1,2

3.

UNIT III: IDENTIFYING GENES: Expressed usually in a sample, Expressed significantly in population, Expressed differently in two populations. Classifying Samples from two populations using Multilayer Perceptron,Support Vector Machines and their applications, Using genetic algorithm and perceptron for feature selection and supervised classification

12

1,2

4.

UNIT IV : REPRESENTATION OF GENE EXPRESSION DATA DATABASES:Stanford, Yale, GEO,,ArrayExpress Distance ;Euclidean distance,Pearson Correlation Coefficient,Mutual Information Clustering Methods:Hierarchial (Single linkage,Complete linkage,Average linkage,Centroid Linkage),Non –Hierarchial 9K-means,SOMs)

12

2,6,7

5.

UNIT V : RELATING EXPRESSION: Expression data to other biological information –Predicting binding sites, Prediction protein. Interactions and protein functions ,Predicting functionally conserved modules, Reverse–engineering of gene regulatory networks.

12

2,6,7