公开(公告)号：US11380420B1

公开(公告)日：2022-07-05

申请号：US15973415

申请日：2018-05-07

Applicant: X Development LLC

Inventor： Frank Russo ,  Jason Thompson ,  Nicholas Casavant ,  Yu Tanouchi

IPC: G06F3/0484 ,  G16B5/00 ,  G06F8/41 ,  G06N5/02 ,  G16B45/00 ,  G06F3/04847

Abstract: A system is described for constructing a biological simulation using inputs from a knowledge base data structure and one or more templates. The knowledge base data structure comprises a set of entries representing distinct molecules and chemical reactions specific within the cell. Each template defines a sub-model program specification and a set of sub-model parameters to further characterize the sub-model specification. A graphical user interface is presented on a display for a user to view and select a templates and to assign information from the knowledge base to the selected template. From the graphical user interface, the user selects multiple templates to be included in the simulation and information from the knowledge base generally describing the cell. Based on the information selected from the graphical user interface, a compiler generates a simulation configuration data file comprising computer code capable of being executed by a simulation engine.

公开(公告)号：US11688487B2

公开(公告)日：2023-06-27

申请号：US16527380

申请日：2019-07-31

Applicant: X Development LLC

Inventor： Yu Tanouchi ,  Nicholas Ruggero

IPC: G16B5/00 ,  G16B40/00 ,  C12M1/34

CPC classification number: G16B5/00 ,  C12M41/32 ,  C12M41/36 ,  C12M41/46 ,  G16B40/00

Abstract: The present disclosure relates to a scalable experimental workflow that uses a culture system to maintain a steady state in a biological system, and techniques for identifying values for parameters in a in silico model based on experimental data obtained from the biological system. Particularly, aspects of the present disclosure are directed to obtaining measurement data for one or more characteristics of a biological system developed in a culture system, where the measurement data is indicative of each of the one or more characteristics at a physiological steady state where growth of the biological system is occurring at a substantially constant growth rate, determining a value for a parameter of a model of the biological system based on an growth formula, the measurement data, and the substantially constant growth rate, and parametrizing the model with at least the value determined for the parameter.

公开(公告)号：US20210035655A1

公开(公告)日：2021-02-04

申请号：US16527380

申请日：2019-07-31

Applicant: X Development LLC

Inventor： Yu Tanouchi ,  Nicholas Ruggero

IPC: G16B5/00 ,  G16B40/00 ,  C12M1/34

Abstract: The present disclosure relates to a scalable experimental workflow that uses a culture system to maintain a steady state in a biological system, and techniques for identifying values for parameters in a in silico model based on experimental data obtained from the biological system. Particularly, aspects of the present disclosure are directed to obtaining measurement data for one or more characteristics of a biological system developed in a culture system, where the measurement data is indicative of each of the one or more characteristics at a physiological steady state where growth of the biological system is occurring at a substantially constant growth rate, determining a value for a parameter of a model of the biological system based on an growth formula, the measurement data, and the substantially constant growth rate, and parametrizing the model with at least the value determined for the parameter.