Tumor dynamics modeling using omics-based data

A method of predicting future tumor data, the method comprising:

• generating a tumor embedding using a tumor encoder and observed tumor data;
• generating a graph embedding using a heterogeneous graph encoder and a heterogeneous graph that includes nodes in a gene domain, a drug domain, and a disease domain;
• generating a predicted tumor size at a future point in time using the tumor embedding, the graph embedding, and a neural ordinary differential equations (ODE) system;
• and
• adjusting a treatment regimen for a treatment to be administered to a subject based on the predicted tumor size.

A system comprising:

• one or more data processors;
• and
• a non-transitory computer readable storage medium containing instructions which, when executed on the one or more data processors, cause the one or more data processors to:
• receive a tumor embedding at a neural ordinary differential equations (ODE) system;
• receive a graph embedding at the neural ODE system, wherein the graph embedding fuses drug information, disease information, and gene relationship information;
• generate a predicted tumor size at a future point in time using the tumor embedding, the graph embedding, and the neural ODE system;
• and
• administer a candidate tumor treatment to a subject in response to the predicted tumor size being less than a selected threshold.

A system comprising:

• one or more data processors;
• and
• a non-transitory computer readable storage medium containing instructions which, when executed on the one or more data processors, cause the one or more data processors to:
• generate a tumor embedding using a tumor encoder and observed tumor data;
• generate a graph embedding using a heterogeneous graph encoder and a heterogeneous graph that includes nodes in a gene domain, a drug domain, and a disease domain;
• generate a predicted tumor size at a future point in time using the tumor embedding, the graph embedding, and a neural ordinary differential equations (ODE) system;
• and
• adjust a treatment regimen for a treatment to be administered to a subject based on the predicted tumor size.