Unified Human Biological Data Model for Pathway Integration
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Solution Overview
Problem
Current databases lack a consistent data model and complete data set for human metabolization and signaling pathways, with incomplete representation of feedback mechanisms, timing, distribution, and merging rules, making it difficult to predict outcomes and understand interactions between genes and proteins.
Innovation Solution
A data model that integrates metabolization and signaling pathways, including feedback mechanisms, to provide a comprehensive representation of gene functions, metabolization reactions, and signaling processes, enabling predictions and explanations of causalities and interactions.
Engineering Contradictions & Design Principles
Engineering Contradiction Analysis
1Reliability
If separate databases are used for metabolization and signaling pathways, then data completeness in individual domains is maintained, but data consistency and integration between domains deteriorate
Solution Approach 1:
The patent merges separate metabolization and signaling pathway databases into a unified data model that maintains all individual data elements while establishing consistent relationships between them. The unified model integrates genes, substances, reactions, receptors, and pathways into a single coherent structure that preserves domain-specific completeness while ensuring cross-domain consistency through standardized data relationships.
Solution Approach 2:
The patent creates a universal data model that serves multiple functions simultaneously: it stores metabolization reactions, signaling pathways, gene expressions, and substance interactions within a single framework. This multi-functional model allows the same data structure to support diverse biological processes while maintaining consistent data representation across all domains.
2Loss of information
If detailed signaling pathways are represented with multiple diagrams and interpretations, then information completeness is improved, but data accessibility and machine interpretability deteriorate
Solution Approach 1:
The patent creates structured data copies of signaling pathway information that can be processed by machines while preserving the full information content. Instead of relying on visual diagrams that require human interpretation, the system generates machine-readable data representations that capture all pathway details, relationships, and functional information in a format accessible to computational systems.
Solution Approach 2:
The patent replaces the mechanical system of visual diagram interpretation with an automated data processing system. By substituting human visual analysis with machine-based data querying and analysis, the system makes pathway information more accessible and easier to operate with, allowing computational systems to automatically interpret and utilize the complete signaling pathway data.
3Adaptability or versatility
If feedback mechanisms and regulatory functions are added to the data model, then system completeness and predictive capability are improved, but model complexity increases
Solution Approach 1:
The patent incorporates feedback mechanisms directly into the data model structure by establishing bidirectional relationships between substances and genes, and between pathway components. The model captures regulatory loops where pathway outputs can influence upstream components, enabling the system to simulate feedback control and predict system behavior under various conditions without requiring separate complex regulatory models.
Data Source
AI summary
The present disclosure provides an approximation method for the functionality managed by genes of the human body, so that it estimates the human functions and consequences, when one or more factors are changed. The invention aggregates the areas of metabolization and signaling in one consistent and coherent approximation. The genes, which rule these areas constitute only approx. 1% of the DNA, so there is evidently more human functionality to be discovered. But the invention ties the known areas consistently together. And it joins the existence of a feedback mechanism to the metabolization and signaling areas to enable predictions of outcomes as a result of changes in inputs. The invention provides new insights, because it manages the cross-human effects, including whole-body causalities far apart in separate pathways and when a gene affects more than one of the areas mentioned above.