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Stress knowledge map [Elektronski vir] : a knowledge graph resource for systems biology analysis of plant stress responsesBleker, Carissa ...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.Source: Plant communications [Elektronski vir]. - ISSN 2590-3462 (Vol. 5, iss. 6, [art. no.] 100920, 10 Jun. 2024, str. 1-15)Type of material - e-articlePublish date - 2024Language - englishCOBISS.SI-ID - 198383363
Digital content: dCOBISS
| Author | Bleker, Carissa ... |
| Title | Stress knowledge map [Elektronski vir] : a knowledge graph resource for systems biology analysis of plant stress responses |
| Publication date | 2024-06-10 |
| COBISS.SI-ID | 198383363 |
| Publication version in repository | Publisher's version |
| Publication licence | Creative Commons Attribution 4.0 International |
| Embargo | Immediate publication for public |
Project(s) from which the publication was funded
| Title | Acronym | Project ID | Funder |
|---|---|---|---|
| Accelerated Development of multiple-stress tolerAnt PoTato | ADAPT | 862858 |
European Commission |
| Odkrivanje strukturnih in dinamičnih lastnosti mehanizmov rastlinskega odgovora z uporabo pristopov sistemske biologije | Z7-1888-2019 |
Javna agencija za znanstvenoraziskovalno in inovacijsko dejavnost Republike Slovenije |
|
| Odkrivanje mehanizmov učinkovitosti in specifičnosti imunske signalizacije v krompirju z inovativnim pridobivanjem podatkov in modeliranjem | J4-1777-2019 |
Javna agencija za znanstvenoraziskovalno in inovacijsko dejavnost Republike Slovenije |
|
| Biotehnologija in sistemska biologija rastlin | P4-0165-2022 |
Javna agencija za znanstvenoraziskovalno in inovacijsko dejavnost Republike Slovenije |
|
| Vzpostavitev metodologij za študij imunosti krompirja na nivoju posameznih celic | N4-0199-2021 |
Javna agencija za znanstvenoraziskovalno in inovacijsko dejavnost Republike Slovenije |
|
| Translacijska genomika in dinamično modeliranje za razumevanje odziva rastlin na stres | Z4-50146-2023 |
Javna agencija za znanstvenoraziskovalno in inovacijsko dejavnost Republike Slovenije |
|
| Connect and align ELIXIR Nodes to deliver sustainable FAIR life-science data management services | ELIXIR-CONVERGE | 871075 |
European Commission |
Files that belong to the publication
https://doi.org/10.1016/j.xplc.2024.100920
Costs of publication
| Cost type | Total cost | Payments |
|---|---|---|
| APC – Article Processing Charge | 2460.00 € |
Source: Personal bibliographies
and: SICRIS
