title: PPARgene: A Database of Experimentally Verified and Computationally Predicted PPAR Target Genes.
abstract: The peroxisome proliferator-activated receptors (PPARs) are ligand-activated transcription factors of the nuclear receptor superfamily. Upon ligand binding, PPARs activate target gene transcription and regulate a variety of important physiological processes such as lipid metabolism, inflammation, and wound healing. Here, we describe the first database of PPAR target genes, PPARgene. Among the 225 experimentally verified PPAR target genes, 83 are for PPARα, 83 are for PPARβ/δ, and 104 are for PPARγ. Detailed information including tissue types, species, and reference PubMed IDs was also provided. In addition, we developed a machine learning method to predict novel PPAR target genes by integrating in silico PPAR-responsive element (PPRE) analysis with high throughput gene expression data. Fivefold cross validation showed that the performance of this prediction method was significantly improved compared to the in silico PPRE analysis method. The prediction tool is also implemented in the PPARgene database.
authors.affiliation: Institute of Cardiovascular Sciences, Peking University Health Science Center, Beijing 100191, China.
authors.forename: Li
authors.initials: L
authors.lastname: Fang
authors.affiliation: Institute of Cardiovascular Sciences, Peking University Health Science Center, Beijing 100191, China.
authors.forename: Man
authors.initials: M
authors.lastname: Zhang
authors.affiliation: Institute of Cardiovascular Sciences, Peking University Health Science Center, Beijing 100191, China.
authors.forename: Yanhui
authors.initials: Y
authors.lastname: Li
authors.affiliation: Institute of Cardiovascular Sciences, Peking University Health Science Center, Beijing 100191, China.
authors.forename: Yan
authors.initials: Y
authors.lastname: Liu
authors.affiliation: Department of Biomedical Informatics, Peking University Health Science Center, Beijing 100191, China.
authors.forename: Qinghua
authors.initials: Q
authors.lastname: Cui
authors.affiliation: Institute of Cardiovascular Sciences, Peking University Health Science Center, Beijing 100191, China; The Advanced Institute for Medical Sciences, Dalian Medical University, Dalian 116044, China.
authors.forename: Nanping
authors.initials: N
authors.lastname: Wang