Nucleic Acid Sequence Retrieval for Broad Oligonucleotide Coverage
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Solution Overview
Problem
Existing methods for designing oligonucleotides to detect target nucleic acid molecules with genetic diversity are manual and time-consuming, relying on personal knowledge and experience, limiting the specificity and coverage of the designed oligonucleotides.
Innovation Solution
An automated method implemented in a computer that retrieves synonyms of target nucleic acid molecules from databases, selects representative sequences, and provides a target nucleic acid sequence data set for oligonucleotide design, enhancing coverage and efficiency.
Engineering Contradictions & Design Principles
Engineering Contradiction Analysis
1Measurement precision
If manual methods are used to design oligonucleotides for detecting target nucleic acid molecules with genetic diversity, then the process relies on personal knowledge and experience, but the method is time-consuming and limits the specificity and coverage of the designed oligonucleotides
Solution Approach 1:
The patent replaces manual mechanical processes with an automated computer-based system. The processor automatically retrieves nucleic acid sequence data from databases, performs multiple sequence alignment, identifies conserved regions, and designs oligonucleotide sequences without human intervention, thereby eliminating the time-consuming nature of manual methods while improving specificity through systematic computational analysis
Solution Approach 2:
The system enables self-service by allowing the computer to autonomously perform the entire oligonucleotide design process. The processor independently accesses databases, processes sequence data, applies alignment algorithms, and generates design recommendations without requiring continuous human input or expertise, thus reducing both time consumption and reliance on personal knowledge
2Adaptability or versatility
If manual methods are used to design oligonucleotides, then personal knowledge and experience are utilized, but the detection coverage of target nucleic acid molecules is limited
Solution Approach 1:
The patent implements a universal system that can handle diverse nucleic acid sequences from various sources including viruses, bacteria, and host organisms. The computer-based platform performs multiple functions: retrieving sequences from different databases, aligning various types of nucleic acid data, identifying conserved regions across different genetic backgrounds, and designing oligonucleotides applicable to multiple detection scenarios, thereby expanding detection coverage without proportionally increasing complexity
Solution Approach 2:
The system segments the complex task of oligonucleotide design into distinct computational steps: sequence retrieval from databases, multiple sequence alignment, conserved region identification, and oligonucleotide design. This segmentation allows each step to be handled by specialized algorithms, improving detection coverage through systematic analysis while managing overall system complexity through modular processing
Data Source
AI summary
The present invention provides a method for providing a target nucleic acid sequence data set of a target nucleic acid molecule. The larger number of synonyms are retrieved from reliable sources than that of synonyms extracted by user experience. Thus, the target nucleic acid sequence data group of the target nucleic acid molecule retrieved based on the larger number of synonyms may cover various variant sequences of the target nucleic acid molecule.