Analysis of regulatory mechanisms of genes controlled by the transcription factor NF-kappaB
Master of Arts
NF-kappaB transcription factors are central to the regulation of many vital processes including immune response. It is known from microarray measurements and clustering methods that NF-kappaB dependent genes in humans are expressed in functionally distinct "waves". This research helps determine how the expression of these sequences is a consequence of their structure, molecular constitution and evolution. This thesis identifies location of TF-binding sites and consensus regions in the DNA sequences that are upregulated by NF-kappaB and examines their structure. This project uses a variety of tools and databases available for sequence analysis including Blast, BLAT, MATCH, GeneBee, BioProspector and MEME. This analysis is one aspect of the larger 'Investigation of NF-kappaB Pathways' project underway at UTMB, Galveston and Rice University. Future promoter analysis of these results will verify the location of functional regulatory sites, thereby enabling us to postulate and verify a model governing expression of NF-kappaB dependent genes.