ArticlePlant physiology2010
VirtualPlant: a software platform to support systems biology research.
Article in Plant physiology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 145 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
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Who cites it
145 citing papers in PubMed, 275 citations in OpenAlex.
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- Modelling the short-term response to nitrogen that coordinates events in lateral root initiation.Quantitative plant biology · 2026Article
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- GCN5-related histone acetyltransferase HOOKLESS2 regulates fungal resistance and growth in tomato.The New phytologist · 2025Article
- Multi-scale phenotyping of senescence-related changes in roots of rapeseed in response to nitrate limitation.Journal of experimental botany · 2025Article
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- Nitrogen sensing and regulatory networks: it's about time and space.The Plant cell · 2024Review
- Transcriptional and metabolic profiling of sulfur starvation response in two monocots.BMC plant biology · 2024Article
- RNA degradome analysis reveals DNE1 endoribonuclease is required for the turnover of diverse mRNA substrates in Arabidopsis.The Plant cell · 2023Article
- KLF17 is an important regulatory component of the transcriptomic response of Atlantic salmon macrophages toFrontiers in immunology · 2023Article
- SUMO E3 ligase SIZ1 connects sumoylation and reactive oxygen species homeostasis processes in Arabidopsis.Plant physiology · 2022Article
- Plant glutamate receptors mediate a bet-hedging strategy between regeneration and defense.Developmental cell · 2022Article
- Validation of a high-confidence regulatory network for gene-to-NUE phenotype in field-grown rice.Frontiers in plant science · 2022Article
- Histone methyltransferases SDG33 and SDG34 regulate organ-specific nitrogen responses in tomato.Frontiers in plant science · 2022Article
- Article
- Nitrate triggered phosphoproteome changes and a PIN2 phosphosite modulating root system architecture.EMBO reports · 2021Article
- Systems biology for crop improvement.The plant genome · 2021Review
85 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
12 authors at 1 institution in 1 country.
Funding
Abstract
Data generation is no longer the limiting factor in advancing biological research. In addition, data integration, analysis, and interpretation have become key bottlenecks and challenges that biologists conducting genomic research face daily. To enable biologists to derive testable hypotheses from the increasing amount of genomic data, we have developed the VirtualPlant software platform. VirtualPlant enables scientists to visualize, integrate, and analyze genomic data from a systems biology perspective. VirtualPlant integrates genome-wide data concerning the known and predicted relationships among genes, proteins, and molecules, as well as genome-scale experimental measurements. VirtualPlant also provides visualization techniques that render multivariate information in visual formats that facilitate the extraction of biological concepts. Importantly, VirtualPlant helps biologists who are not trained in computer science to mine lists of genes, microarray experiments, and gene networks to address questions in plant biology, such as: What are the molecular mechanisms by which internal or external perturbations affect processes controlling growth and development? We illustrate the use of VirtualPlant with three case studies, ranging from querying a gene of interest to the identification of gene networks and regulatory hubs that control seed development. Whereas the VirtualPlant software was developed to mine Arabidopsis (Arabidopsis thaliana) genomic data, its data structures, algorithms, and visualization tools are designed in a species-independent way. VirtualPlant is freely available at www.virtualplant.org.
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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.