Interrogatory Cell-Based Assays for Multi-Omics Disease Pathway Mapping
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Solution Overview
Problem
Current approaches to elucidate the mechanisms and pathways involved in diseases such as cardiovascular disease (CVD) and associated co-morbidities like diabetes and peripheral vascular disease are lacking, hindering effective diagnosis, management, and treatment.
Innovation Solution
A systems biology approach utilizing network biology, genomic, proteomic, metabolomic, and bioinformatics tools to study biological systems through cellular modeling, high-throughput readouts, and AI-based data analysis to identify key regulatory pathways and drug targets.
Engineering Contradictions & Design Principles
Engineering Contradiction Analysis
1Measurement precision
If traditional molecular biology tools and methods are used to study disease mechanisms, then detailed gene regulation measurement is achieved, but comprehensive understanding of post-transcriptional modifications, translational modifications, and cellular cross-talk mechanisms is lost
Solution Approach 1:
The patent combines multiple analytical dimensions (transcriptomics, proteomics, metabolomics, phosphoproteomics) into an integrated cellular output assay platform. This merging allows simultaneous measurement of gene regulation, post-transcriptional modifications, translational modifications, and cellular cross-talk mechanisms, resolving the information loss problem while maintaining measurement precision through multi-omics data integration
Solution Approach 2:
The patent transitions from traditional single-dimensional gene regulation analysis to multi-dimensional cellular output assessment by incorporating proteomic, metabolomic, and phosphoproteomic layers. This dimensional expansion captures post-transcriptional and translational modifications that were previously invisible, providing a comprehensive view of disease mechanisms
2Measurement precision
If focused study of specific gene pathways is conducted, then detailed mechanism understanding is achieved, but broad disease etiology understanding and identification of key regulatory pathways is hindered
Solution Approach 1:
The patent creates a universal cellular output assay platform that can study any disease condition by measuring cellular responses across multiple omics layers. The system is adaptable to different diseases (cardiovascular disease, diabetes, cancer, neurodegenerative disorders) while maintaining detailed pathway mechanism understanding through targeted analysis of specific cellular outputs relevant to each disease
3Ease of operation
If conventional diagnostic and treatment approaches are used for cardiovascular disease, then clinical management is improved, but effective diagnosis, management, and treatment of underlying disease etiology is hindered
Solution Approach 1:
The patent introduces cellular output assays as an intermediary between conventional clinical management and disease etiology diagnosis. These assays measure cellular responses to disease-relevant stimuli, providing mechanistic insights into disease pathways while maintaining compatibility with existing clinical workflows, thus bridging the gap between ease of operation and diagnostic reliability
Data Source
AI summary
Methods for identifying a modulator of angiogenesis and methods for modulating angiogenesis in a mammalian subject are described herein. In some embodiments, the methods include obtaining data sets from a model for angiogenesis and generating a causal relationship network model based on the obtained data. In some embodiments, the methods include identifying, from the causal relationship network model, a causal relationship unique in angiogenesis, where a gene, lipid, protein, metabolite, transcript, or SNP associated with the unique causal relationship is identified as a modulator of angiogenesis.