Corcoran David L, Feingold Eleanor, Benos Panayiotis V
Department of Human Genetics, Graduate School of Public Health, University of Pittsburgh, Pittsburgh, PA, USA.
Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W442-6. doi: 10.1093/nar/gki420.
FOOTER is a newly developed algorithm that analyzes homologous mammalian promoter sequences in order to identify transcriptional DNA regulatory 'signals'. FOOTER uses prior knowledge about the binding site preferences of the transcription factors (TFs) in the form of position-specific scoring matrices (PSSMs). The PSSM models are generated from known mammalian binding sites from the TRANSFAC database. In a test set of 72 confirmed binding sites (most of them not present in TRANSFAC) of 19 TFs, it exhibited 83% sensitivity and 72% specificity. FOOTER is accessible over the web at http://biodev.hgen.pitt.edu/Footer/.
FOOTER是一种新开发的算法，它通过分析同源哺乳动物启动子序列来识别转录DNA调控“信号”。FOOTER利用位置特异性评分矩阵（PSSM）形式的转录因子（TF）结合位点偏好的先验知识。PSSM模型由TRANSFAC数据库中的已知哺乳动物结合位点生成。在19个TF的72个已确认结合位点（其中大多数不在TRANSFAC中）的测试集中，它表现出83%的灵敏度和72%的特异性。可通过网页http://biodev.hgen.pitt.edu/Footer/访问FOOTER。
