Genomic Workflow GUI Automating Data Processing Pipelines
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Solution Overview
Problem
The complexity of analyzing genomic data often leads to disorganized and difficult-to-reproduce research processes due to the reliance on disparate data sources and disconnected tools, making it challenging for researchers to efficiently analyze variations in genomic sequences and their effects on diseases.
Innovation Solution
A workflow system that allows for the creation of automated and reusable workflows, where genomic data is processed through a graphical user interface by linking data nodes and action nodes, enabling the automation of data processing tasks with minimal user intervention and facilitating the integration of various tools and databases.
Engineering Contradictions & Design Principles
Engineering Contradiction Analysis
1Adaptability or versatility
If researchers use multiple disparate data sources and disconnected tools to analyze genomic data, then the analysis can be comprehensive, but the research process becomes complex and difficult to reproduce
Solution Approach 1:
The patent combines multiple disparate data sources and disconnected tools into a single integrated genomic analysis platform. The system unifies sequence data, annotation data, and various analysis tools within one cohesive environment, eliminating the need to switch between multiple external resources and thereby reducing research process complexity while maintaining comprehensive analysis capability.
Solution Approach 2:
The patent creates a universal genomic analysis system that performs multiple functions including sequence retrieval, annotation, alignment, and various types of genomic analysis within a single platform. This multi-functional approach allows researchers to conduct comprehensive analyses without needing to coordinate multiple separate tools, thus reducing complexity while preserving versatility.
2Manufacturing precision
If researchers manually process genomic data through multiple disconnected tools, then detailed analysis can be performed, but the process becomes time-consuming and error-prone
Solution Approach 1:
The patent implements automated workflows that pre-configure analysis pipelines with properly connected tools and parameters. Common analysis tasks are prepared in advance as reusable workflows, eliminating the need for researchers to manually set up and connect multiple tools for each analysis, thereby reducing time loss while maintaining analysis precision through consistent, pre-validated configurations.
Solution Approach 2:
The system provides automated data processing capabilities that perform analyses without requiring manual intervention at each step. The platform automatically retrieves data, applies appropriate analysis tools, and generates results, reducing both time consumption and human error while maintaining precision through systematic, repeatable processes.
3Adaptability or versatility
If researchers use disconnected tools for genomic analysis, then specific tasks can be performed with specialized functionality, but the overall process becomes disorganized and hard to reproduce
Solution Approach 1:
The patent organizes the genomic analysis system into distinct modular components, each handling specific tasks such as sequence retrieval, annotation, alignment, and various analysis functions. These segmented modules can be independently configured and combined into reusable workflows, maintaining task specialization while improving reproducibility through systematic organization and documentation of analysis pipelines.
Solution Approach 2:
The system allows researchers to configure and save specific parameter settings for each analysis tool within standardized workflow templates. By parameterizing analysis configurations and storing them as reusable workflows, the system maintains the ability to perform specialized tasks while ensuring reproducibility through consistent, documented parameter settings that can be exactly replicated in future studies.
Data Source
AI summary
Methods and computer apparatuses are disclosed for processing genomic data in at least partially automated workflows of modules. A method comprises: specifying a source from which nucleic acid sequence(s) are to be obtained; selecting module(s) for processing data, including at least one module for processing the one or more nucleic acid sequences; presenting, in a graphical user interface, graphical components representing the source and the module(s) as nodes within a workspace; receiving, via the graphical user interface, inputs arranging the source and the module(s) as a workflow comprising a series of nodes, the series indicating, for each particular module, that output from one of the source or another particular module is to be input into the particular module; generating an output for the workflow based upon the nucleic acid sequence(s) by processing each module in an order indicated by the series.