This article is part of the supplement: Eighth International Conference on Bioinformatics (InCoB2009): Computational Biology
Computational identification and experimental validation of PPRE motifs in NHE1 and MnSOD genes of Human
1 Department of Biochemistry, Yong Loo Lin School of Medicine, National University of Singapore, Singapore
2 National University Medical Institutes, Yong Loo Lin School of Medicine, National University of Singapore, Singapore
3 Department of Physiology, Yong Loo Lin School of Medicine, National University of Singapore, Singapore
4 NUS Graduate School for Integrative Sciences and Engineering, National University of Singapore, Singapore
5 Duke-NUS Graduate Medical School, Singapore, Singapore
6 Singapore-MIT Alliance, Singapore
7 Biomedical Engineering Research Centre, Nanyang Technological University, Singapore
8 Advanced Design and Modeling Lab, Nanyang Technological University, Singapore
BMC Genomics 2009, 10(Suppl 3):S5 doi:10.1186/1471-2164-10-S3-S5Published: 3 December 2009
Activation of PPARs has been reported to inhibit the proliferation of malignant cells from different lineages. They are involved in transcription regulation of genes upon activation by a ligand. The binding of PPARs to the promoter sequence either represses or activates the gene. Hence, PPARs represent promising targets for cancer treatment because of their anti-proliferative and pro-apoptotic activities. Here we computationally identified PPAR binding regions in NHE1 and MnSOD. We further validated the predictions in vitro.
Our results computationally predicted the presence of 2 PPRE motifs in NHE1 and 3 PPRE motifs in MnSOD. We experimentally confirmed the true motifs and their regulation by PPAR.
Our results suggest that both NHE1 and MnSOD have PPRE binding motif in their upstream/promoter region and hence are regulated by PPAR upon ligand binding.