ArticlePlant phenomics (Washington, D.C.)2025
panomiX: Investigating mechanisms of trait emergence through multi-omics data integration.
Article in Plant phenomics (Washington, D.C.), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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Who cites it
4 citing papers in PubMed.
- Hyperspectral imaging reveals early drought stress and associated molecular responses in lettuce for space agriculture.Plant phenomics (Washington, D.C.) · 2026Article
- Beyond QTL and GWAS: how deep learning, graph models, and multi-omics are reshaping plant genomic prediction analysis.Frontiers in genetics · 2026Review
- Integrative Transcriptomic and Evolutionary Analysis of Drought and Heat Stress Responses inPlants (Basel, Switzerland) · 2025Article
- Integrating multi-omics and machine learning for disease resistance prediction in legumes.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2025Review
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Authors and funding
10 authors.
Funding
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Abstract
Complex omics approaches and high-throughput phenotyping generate large, heterogeneous datasets that make linking molecular signatures to plant traits challenging. To address this challenge, here we introduce panomiX, a user-friendly toolbox for multi-omics integration, designed to enable non-experts to apply advanced computational methods with ease. PanomiX automates data preprocessing, variance analysis, multi-omics prediction, and interaction modeling through machine learning, revealing meaningful molecular interactions and synergies. We applied panomiX to a tomato heat-stress experiment combining image-based phenotyping, transcriptomics, and Fourier-transform infrared spectroscopy data, with the aim of identification of condition-specific, cross-domain relationships between gene expression, metabolite levels, and phenotypic traits. Our approach identified a network of such connections, with those linking photosynthesis traits with stress-responsive kinases in elevated temperatures among most significant ones. By simplifying complex analyses and improving interpretability, panomiX offers a platform to accelerate the discovery of trait emergence in plants and select specific candidate genes based on multi-omics analyses.
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Registered trials
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