A mathematical model in the study of genes for identifying transcription factor binding sites

This paper deals with the analysis of a mathematical model for a study of genomics concerned with the differential regulation of gene expression. The approach being studied here pioneers the motif-based regression analysis of a single transcriptome. Implemented as the algorithm REDUCE—an acronym that stands for regulatory element detection using correlation with expression—the method naturally takes into account the combinatorial nature of gene expression regulation and provides context-specific information about transcription factor activities.