Quantitative analysis of the Drosophila segmentation regulatory network using pattern generating potentials.

摘要: Cis-regulatory modules that drive precise spatial-temporal patterns of gene expression are central to the process metazoan development. We describe a new computational strategy annotate genomic sequences based on their “pattern generating potential” and produce quantitative descriptions transcriptional regulatory networks at level individual protein-module interactions. use this approach convert qualitative understanding interactions regulate Drosophila segmentation into network model in which confidence value is associated with each transcription factor-module interaction. Sequence information from multiple species integrated factor binding specificities determine conserved site frequencies across genome. These profiles combined create predict module activity patterns. This used scan for potential generate all or part pattern nearby gene, obtained available databases. Interactions between factors inferred by statistical method quantify factor's contribution module's potential. these potentials systematically location function known novel cis-regulatory network, identifying many examples predicted have overlapping activities. Surprisingly, were as effective experimental measurements occupancy predicting Thus, unlike previous prediction methods, predicts not only but also spatial directly pattern. As databases vivo grow, analysis provides general decode networks.