Gene discovery for the system assignment of gene function

A method for assigning a cellular function to a component of a biochemical system, comprising:

• (a) determining an integrated multidimensional data space for each of at least two networks in a reference state biochemical system;
• (b) determining a multidimensional shape space for at least one network in a perturbed state biochemical system, and
• (c) determining a component multidimensional coordinate point contained within a multidimensional shape space representing the difference between multidimensional data spaces of reference and perturbed states of said biochemical system, said component being linked to said network having perturbed multidimensional shape space, and thereby being assigned the cellular function of said network.

A method for assigning a cellular function to a component of a biochemical system, comprising:

• (a) comparing two integrated multidimensional data spaces of a biochemical system obtained in reference and perturbed states of a biochemical system, said integrated multidimensional data spaces comprising at least two networks, and
• (b) determining a component multidimensional coordinate point contained within a multidimensional data space representing the difference between multidimensional data spaces of reference and perturbed states of said biochemical system, said component being linked to said network having said perturbed multidimensional shape space, and thereby being assigned a cellular function of said network.

A method for assigning a cellular function to a component of a biochemical system, comprising:

• (a) determining a multidimensional coordinate point representing a data element of a set of components in a biochemical network of a perturbed biochemical system;
• (b) comparing said multidimensional coordinate point to a network-associated reference expression region of said set of components, and
• (c) determining if said multidimensional coordinate point is outside of said network-associated reference expression region, wherein a multidimensional coordinate point outside of said network-associated reference expression region indicates a perturbed state of said network, said component being linked to said perturbed network and thereby being assigned a cellular function of said network.

A method for assigning a cellular function to a component of a biochemical system, comprising:

• (a) determining a multidimensional coordinate point representing a data element of a set of components in a biochemical pathway of a perturbed biochemical system;
• (b) comparing said multidimensional coordinate point to a pathway-associated reference expression region of said set of components, and
• (c) determining if said multidimensional coordinate point is outside of said pathway-associated reference expression region, wherein a multidimensional coordinate point outside of said pathway-associated reference expression region indicates a perturbed state of said pathway, said component being linked to said perturbed pathway and thereby being assigned a cellular function of said pathway.

A method for identifying a component of a biochemical network, comprising:

• (a) determining an integrated multidimensional data space for a biochemical system comprising at least two networks;
• (b) perturbing at least one component of a biochemical pathway, and
• (c) determining a multidimensional coordinate point for a candidate network component affected by said perturbing of the biochemical system, wherein a candidate component having an altered multidimensional coordinate point in response to said perturbation is identified as a component of said biochemical network.

A method for identifying functionally interactive components of a biochemical network, comprising:

• (a) determining a set of components of a biochemical system, each component linked to another by a common first data element;
• (b) determining a set of components of a biochemical system linked by a common second data element, the second data element represented by a multidimensional coordinate point corresponding to each component, and
• (c) integrating the set of components linked by a common first data element with the set of components linked by a common second data element represented by a multidimensional coordinate point corresponding to each component, to produce a network of functionally interactive components, each component within said network of functionally interactive components being characterized as linked by at least two data elements.