Automated Gene Editing Cassette Design Engine
Find Innovative SolutionsGenerate Solutions
Solution Overview
Problem
Current methods for creating diverse populations of edited cells using gene editing cassettes are costly, time-consuming, and inefficient due to the complexity of designing and analyzing gene editing cassettes that target multiple genetic loci.
Innovation Solution
The development of automated systems and methods for generating and analyzing libraries of DNA-editing cassette designs, which include a design library specification and a candidate cassette design engine to efficiently produce and score candidate cassette designs, significantly reducing the time and resources required for designing diverse populations of edited cells.
Engineering Contradictions & Design Principles
Engineering Contradiction Analysis
1Productivity
If automated systems are used to generate libraries of cassette designs, then productivity and speed are improved, but device complexity increases
Solution Approach 1:
The automated cassette design system is divided into distinct functional modules: a library specification module that defines design parameters, a candidate cassette design engine that generates designs, and a scoring module that evaluates them. This segmentation allows each component to be optimized independently while working together to achieve high productivity through automation.
2Manufacturing precision
If comprehensive criteria are applied to each editing cassette design, then manufacturing precision is improved, but loss of time increases
Solution Approach 1:
The system performs preliminary actions by establishing a comprehensive library specification that pre-defines all design criteria and parameters before the actual cassette design generation begins. This allows the automated engine to efficiently evaluate candidates against pre-set standards without time-consuming ad-hoc analysis, achieving both precision and speed.
Solution Approach 2:
The patent replaces manual mechanical design processes with an automated computational system. The candidate cassette design engine and scoring module use algorithms to automatically evaluate designs against comprehensive criteria, substituting time-consuming manual analysis with rapid computational assessment that maintains high precision.
3Productivity
If storage and compute resources are increased to handle large design libraries, then productivity is improved, but loss of energy increases
Solution Approach 1:
The system extracts and separates the computationally intensive design generation and scoring functions into a dedicated automated engine that can be optimized for efficiency. By isolating these resource-intensive operations, the system can manage large design libraries more effectively while monitoring and optimizing energy consumption of the compute and storage resources.
Data Source
AI summary
The present disclosure is drawn to creating cassette designs for nucleic acid-guided nuclease editing. In designing editing cassettes, a set of edit specifications must first be obtained. These edit specifications are taken together with a set of configuration parameters to start a computational pipeline that generates a collection of cassette designs. The process of designing editing cassettes involves the following exemplary steps: 1) creation of a set of candidate cassette designs for each unique edit specification, 2) enumeration of features describing biophysical characteristics of each candidate design, 3) providing each candidate design with a score, and 4) returning a number of scored and rank-ordered candidate cassette designs for each edit specification.