ArticlePlant communications2024
Stress Knowledge Map: A knowledge graph resource for systems biology analysis of plant stress responses.
Article in Plant communications, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- From knowledge graph to topological data analysis: a novel framework to analyze gene regulatory networks for tomato-multi-pathogen interactions.The New phytologist · 2026Article
- ALKBH10B mediated epitranscriptomic regulation enhances drought tolerance of Arabidopsis thaliana via hormonal cross-talk and sustained photosynthesis.Plant cell reports · 2026Article
- ERF transcription factor StPti5 is a regulator of endophyte community maintenance in potato.The New phytologist · 2026Article
- TabularQual: A spreadsheet-based format for annotating and curating logical models in SBML-qual.bioRxiv : the preprint server for biology · 2026Article
- Wheat growth model capturing growth-defense trade-off.Frontiers in plant science · 2026Review
- With or without a CaPlanta · 2025Article
- GLARE: discovering hidden patterns in spaceflight transcriptome using representation learning.NPJ microgravity · 2025Article
- Evaluating plant growth-defense trade-offs by modeling the interaction between primary and secondary metabolism.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Integration of multi-omics data and deep phenotyping provides insights into responses to single and combined abiotic stress in potato.Plant physiology · 2025Article
- CaBMC plant biology · 2025Article
- Chloroplast Vesiculation and InducedPlant direct · 2025Article
- Confronting the data deluge: How artificial intelligence can be used in the study of plant stress.Computational and structural biotechnology journal · 2024Review
- Evidence-based unification of potato gene models with the UniTato collaborative genome browser.Frontiers in plant science · 2024Article
Corrections and comments
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Authors and funding
17 authors.
Funding
Abstract
Stress Knowledge Map (SKM; https://skm.nib.si) is a publicly available resource containing two complementary knowledge graphs that describe the current knowledge of biochemical, signaling, and regulatory molecular interactions in plants: a highly curated model of plant stress signaling (PSS; 543 reactions) and a large comprehensive knowledge network (488 390 interactions). Both were constructed by domain experts through systematic curation of diverse literature and database resources. SKM provides a single entry point for investigations of plant stress response and related growth trade-offs, as well as interactive explorations of current knowledge. PSS is also formulated as a qualitative and quantitative model for systems biology and thus represents a starting point for a plant digital twin. Here, we describe the features of SKM and show, through two case studies, how it can be used for complex analyses, including systematic hypothesis generation and design of validation experiments, or to gain new insights into experimental observations in plant biology.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.