Microarray studies

A microarray experiment captures the expression of thousands of genes simultaneously. When interested in time-varying changes of expression levels of many genes in a cell, one can use several microarrays to obtain a large number of gene expression profiles simultaneously. My primary focus in this research is to cluster the expression profiles based on similar behavior over time. In the microarray setting, genes with similar expression profiles are coexpressed. Co-expression can suggest functional pathways and interactions between genes. Other research in this area is the discovery of a cross-hybridization artifact intrinsic to spotted single-dye cDNA as a result of cDNA containing 5'-end sequences of consecutive thymidine (dT) residues.

1. Handley, D, Serban, N., Peters, D., O'Doherty, R., Feild, M., Wasserman, L., Spirites, P., Scheines, R., Glymour, C. (2005), "Evidence of Cross-Hybridization Artifact in Expressed Sequence Tags (ESTs) on cDNA microarrays", Genomics, 83(6):1169-75.

2. Handley, D., Serban, N., Peters, N., Glymour,C. (2004) "Concerns About Unreliable Data from Spotted cDNA Microarrays Due to Cross-Hybridization and Sequence Errors," Statistical Applications in Genetics and Molecular Biology,3(1).

3. Serban, N., Wasserman, L. (2005), "CATS: Cluster Analysis by Transformation and Smoothing", Journal of the American Statistical Association, 100 (471), pp 990-999.

4. Serban, N., Jiang, H. (2012), "Multilevel Functional Clustering Analysis", Biometrics, 68(3), 805-814.
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