ArticlePloS one2011
ePlant and the 3D data display initiative: integrative systems biology on the world wide web.
Article in PloS one, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 33 papers.
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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.
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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
33 citing papers in PubMed.
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- Elucidating design principles for Ribozyme-Enabled Tissue Specificity (RETS) to allow precise expression without specialized promoters.bioRxiv : the preprint server for biology · 2025Article
- A single-cell, spatial transcriptomic atlas of the Arabidopsis life cycle.Nature plants · 2025Article
- RdDM-Associated Chromatin Remodelers in Soybean: Evolution and Stress-Induced Expression of CLASSY Genes.Plants (Basel, Switzerland) · 2025Article
- A root-based N-hydroxypipecolic acid standby circuit to direct immunity and growth of Arabidopsis shoots.Nature plants · 2025Article
- QTL mapping for yield contributing traits in mungbean (Vigna radiata L.) using a RIL population.Scientific reports · 2025Article
- Damage activates EXG1 and RLP44 to suppress vascular differentiation during regeneration in Arabidopsis.Plant communications · 2025Article
- Proteomic Dynamics in the Interaction of Susceptible and Resistant Tomato Cultivars and Potato Cyst Nematodes.International journal of molecular sciences · 2025Article
- Uvr motifs regulate the chloroplast Clp chaperone-protease system.Trends in plant science · 2025Review
- 20 years of the Bio-Analytic Resource for Plant Biology.Nucleic acids research · 2025Article
- The FERONIA-RESPONSIVE TO DESICCATION 26 module regulates vascular immunity to Ralstonia solanacearum.The Plant cell · 2024Article
- Genome-Wide Identification and Expression Analysis ofInternational journal of molecular sciences · 2024Article
- Sensory plastid-associated PsbP DOMAIN-CONTAINING PROTEIN 3 triggers plant growth- and defense-related epigenetic responses.The Plant journal : for cell and molecular biology · 2023Article
- Structure and functional divergence of PIP peptide family revealed by functional studies on PIP1 and PIP2 inFrontiers in plant science · 2023Article
- A peroxisomal heterodimeric enzyme is involved in benzaldehyde synthesis in plants.Nature communications · 2022Article
- Cross-species transcriptomic analyses reveals common and opposite responses in Arabidopsis, rice and barley following oxidative stress and hormone treatment.BMC plant biology · 2022Article
- Origin and evolution of a gibberellin-deactivating enzyme GAMT.Plant direct · 2020Article
- A malectin domain kinesin functions in pollen and seed development in Arabidopsis.Journal of experimental botany · 2020Article
Corrections and comments
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Authors and funding
10 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Visualization tools for biological data are often limited in their ability to interactively integrate data at multiple scales. These computational tools are also typically limited by two-dimensional displays and programmatic implementations that require separate configurations for each of the user's computing devices and recompilation for functional expansion. Towards overcoming these limitations we have developed "ePlant" (http://bar.utoronto.ca/eplant) - a suite of open-source world wide web-based tools for the visualization of large-scale data sets from the model organism Arabidopsis thaliana. These tools display data spanning multiple biological scales on interactive three-dimensional models. Currently, ePlant consists of the following modules: a sequence conservation explorer that includes homology relationships and single nucleotide polymorphism data, a protein structure model explorer, a molecular interaction network explorer, a gene product subcellular localization explorer, and a gene expression pattern explorer. The ePlant's protein structure explorer module represents experimentally determined and theoretical structures covering >70% of the Arabidopsis proteome. The ePlant framework is accessed entirely through a web browser, and is therefore platform-independent. It can be applied to any model organism. To facilitate the development of three-dimensional displays of biological data on the world wide web we have established the "3D Data Display Initiative" (http://3ddi.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.