Nucleic Acid Base Calling via Basic-Unit Signal Clustering
Find Innovative SolutionsGenerate Solutions
Solution Overview
Problem
Existing sequencing technologies face issues with incomplete detection of image features, leading to loss of throughput in base calling due to incomplete templates, resulting in inaccurate sequencing results.
Innovation Solution
A method and apparatus for determining a base sequence by processing images at the basic unit level, detecting base types at each unit position, and clustering similar sequences to improve accuracy and throughput.
Engineering Contradictions & Design Principles
Engineering Contradiction Analysis
1Measurement precision
If template construction based on image feature identification is used for base calling, then the base calling process can be structured and systematic, but the throughput is lost when templates are incomplete or do not truly reflect the chemical features on the surface
Solution Approach 1:
The patent divides the image into multiple tiles and processes each tile independently to identify chemical features. This segmentation allows parallel processing of multiple regions simultaneously, increasing throughput while maintaining accurate feature identification for template construction.
Solution Approach 2:
The patent performs preliminary identification of chemical features and construction of templates before the base calling process. By pre-processing the image data to identify all chemical features and build comprehensive templates in advance, the system ensures complete templates are available for subsequent base calling, preventing throughput loss.
2Ease of operation
If image features are identified to construct templates for base calling, then the base sequence determination can be systematic, but detection accuracy decreases when reaction signals are weak or sensitivity is low
Solution Approach 1:
The patent merges information from multiple tiles and combines detection signals to identify chemical features. By aggregating data across multiple image tiles and combining weak signals, the system enhances detection sensitivity and accuracy for weak reaction signals while maintaining systematic processing.
Solution Approach 2:
The patent introduces an intermediary template construction process that bridges image acquisition and base calling. The template serves as an intermediary structure that consolidates and enhances chemical feature information, making weak signals more detectable and improving overall detection accuracy.
3Ease of manufacture
If traditional template-based base calling is used, then the process can be standardized, but sequencing results become inaccurate when templates do not reflect complete chemical features
Solution Approach 1:
The patent performs preliminary and comprehensive identification of all chemical features across multiple image tiles before constructing templates. This advance preparation ensures that templates contain complete and accurate chemical feature information, making them reliable for standardized base calling processes.
Solution Approach 2:
The patent segments the image into multiple tiles for independent and thorough feature identification, then integrates these findings into comprehensive templates. This segmented approach ensures no chemical features are missed, improving template completeness and sequencing accuracy while maintaining standardization.
Data Source
Figure 1~2
Figure 3~4
Figure 5~6
AI summary
The present application discloses a method and apparatus for determining a base sequence of a nucleic acid template, a device, and a medium, and generally relates to the field of data processing. The method includes: processing an image including a feature corresponding to the nucleic acid template, including: determining a signal intensity at each basic unit position in the image, where the image includes a plurality of basic units, the size of the feature corresponding to the nucleic acid template in the image is represented as one or more basic units, and the size of one basic unit is less than or equal to the size of one pixel of the image; detecting, based on the signal intensity at each basic unit position, the type of one or more bases incorporated into the nucleic acid template corresponding to the basic unit position to determine a detected base sequence at each basic unit position; and clustering, based on a similarity between the detected base sequence at each basic unit position and detected base sequences at surrounding basic unit positions thereof, the detected base sequences or the basic unit positions to determine a portion of the base sequence of the nucleic acid template. The present application can improve the sequencing accuracy and sequencing throughput.