Abstract: Methods for identifying responder genes and regulatory regions that confer responsiveness to a test substance or other perturbation are provided. Regulatory regions identified by such methods or other methods are cloned into expression constructs to control expression of a nucleic acid molecule that encodes, for example, a selectable marker or reporter, and introduced into cells. The resulting cells are used, for example, in high throughput screening assays for profiling substances and conditions and for studying the function of the regulatory region mediating the response. Addressable collections of the cells are also provided.

Abstract: This invention provides methods, kits, and algorithms for obtaining molecular signatures of cells based on their gene expression profiles. Devices for carrying out molecular signature analysis of unknown samples are also provided.