NGS Index Sequence Detection for Real-Time Sample Separation
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Solution Overview
Problem
Existing next-generation sequencing (NGS) technologies require sequencing runs to be completed before data from multiple samples can be sorted and separated, leading to potential errors and resource wastage due to manual index sequence determination, which can be time-consuming and inefficient.
Innovation Solution
The system enables early sorting and separation of sequencing data during an ongoing sequencing run by determining index sequences automatically, allowing for accurate identification and separation of sequencing results from multiple samples, and includes a computer system with dedicated processors, FPGAs, and a cloud connection for real-time processing and data storage.
Engineering Contradictions & Design Principles
Engineering Contradiction Analysis
1Reliability
If sequencing data sorting and separation is performed only after the sequencing run is completed, then data accuracy can be ensured through complete data collection, but time is wasted and resources are not freed up for other tasks
Solution Approach 1:
The system performs preliminary sorting and separation of sequencing data during the sequencing run itself, before the run is completely finished. By analyzing data as it becomes available and separating samples based on index sequences detected so far, the system prepares data for downstream analysis ahead of time while the sequencing continues, thus reducing overall processing time and freeing the sequencing system earlier.
2Ease of operation
If manual index sequence determination is used, then flexibility and control are maintained, but errors increase and the process becomes time-consuming
Solution Approach 1:
The system implements automated determination of index sequences using computational algorithms that analyze the sequencing data itself to identify and assign index sequences to samples. This self-service approach replaces manual determination, eliminating human errors while maintaining the necessary control and flexibility through programmable parameters and quality thresholds that can be adjusted as needed.
3Productivity
If early sorting and separation of sequencing data is implemented, then time and resources are freed up, but data may be processed before complete sequencing information is available
Solution Approach 1:
The system performs partial sorting and separation of sequencing data during the run, processing only the portion of data that is sufficiently complete and reliable at each intermediate stage. Rather than waiting for 100% completion or processing incomplete data, the system identifies data that has reached an adequate threshold of completeness and separates it, achieving a balance between early productivity gains and data precision requirements.
Data Source
AI summary
Described herein are systems, apparatus, methods, and/or computer program product embodiments, and/or combinations and sub-combinations thereof which enables automated determination of index sequence(s) during DNA sequencing data analysis. As a particular application of such, embodiments of methods, systems, and media for automatically determining index sequences are disclosed herein so that sequencing results from multiple samples can be sorted and separated accurately for downstream analysis, such as secondary analysis.