AI-driven multi-omics integration for multi-scale predictive modeling of causal genotype-environment-phenotype relationships
<|reference_start|>AI-driven multi-omics integration for multi-scale predictive modeling of causal genotype-environment-phenotype relationships: Despite the wealth of single-cell multi-omics data, it remains challenging to predict the consequences of novel genetic and chemical perturbations in the human body. It requires knowledge of molecular interactions at all biological levels, encompassing disease models and humans. Current machine learning methods primarily establish statistical correlations between genotypes and phenotypes but struggle to identify physiologically significant causal factors, limiting their predictive power. Key challenges in predictive modeling include scarcity of labeled data, generalization across different domains, and disentangling causation from correlation. In light of recent advances in multi-omics data integration, we propose a new artificial intelligence (AI)-powered biology-inspired multi-scale modeling framework to tackle these issues. This framework will integrate multi-omics data across biological levels, organism hierarchies, and species to predict causal genotype-environment-phenotype relationships under various conditions. AI models inspired by biology may identify novel molecular targets, biomarkers, pharmaceutical agents, and personalized medicines for presently unmet medical needs.<|reference_end|>
@article{wu2024ai-driven,
    title={AI-driven multi-omics integration for multi-scale predictive modeling of
  causal genotype-environment-phenotype relationships},
    author={You Wu (1), Lei Xie (1,2,3,4) ((1) Ph.D. Program in Computer Science,
  The Graduate Center, The City University of New York, New York, New York,
  USA, (2) Ph.D. Program in Biology and Biochemistry, The Graduate Center, The
  City University of New York, New York, New York, USA, (3) Department of
  Computer Science, Hunter College, The City University of New York, New York,
  New York, USA, (4) Helen and Robert Appel Alzheimers Disease Research
  Institute, Feil Family Brain and Mind Research Institute, Weill Cornell
  Medicine, Cornell University, New York, New York, USA)},
    journal={arXiv preprint arXiv:2407.06405},
    year={2024},
    archivePrefix={arXiv},
    eprint={2407.06405},
    primaryClass={cs.AI}
}