Methods for Rule-based Genome Design

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Methods for Rule-based Genome Design

Application US20260100251A1 Kind: A1 Apr 09, 2026

Inventors

Gleb Kuznetsov, Marc J. Lajoie, Matthieu M. Landon, Michael G. Napolitano, Daniel Bryan Goodman, Christopher J. Gregg, George M. Church, Nili Ostrov

Abstract

Methods and systems for designing, testing, and validating genome designs based on rules or constraints or conditions or parameters or features and scoring are described herein. A computer-implemented method includes receiving data for a known genome and a list of alleles, identifying and removing occurrences of each allele in the known genome, determining a plurality of allele choices with which to replace occurrences in the known genome, generating a plurality of alternative gene sequences for a genome design based on the known genome, wherein each alternative gene sequence comprises a different allele choice, applying a plurality of rules or constraints or conditions or parameters or features to each alternative gene sequence by assigning a score for each rule or constraint or condition or parameter or feature in each alternative gene sequence, resulting in scores for the applied plurality of rules or constraints or conditions or parameters or features, scoring each alternative gene sequence based on a weighted combination of the scores for the plurality of rules or constraints or conditions or parameters or features, and selecting at least one alternative gene sequence as the genome design based on the scoring.

CPC Classifications

G16B 35/10 C07K 14/245 C12N 15/1089 C12P 21/00 G16B 20/50 A61K 38/00

Filing Date

2024-09-30

Application No.

18901470

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