ArticleFrontiers in plant science2019
Cyberinfrastructure to Improve Forest Health and Productivity: The Role of Tree Databases in Connecting Genomes, Phenomes, and the Environment.
Article in Frontiers in plant science, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
17 citing papers in PubMed, 44 citations in OpenAlex.
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- The effectiveness of large language models with RAG for auto-annotating trait and phenotype descriptions.Biology methods & protocols · 2025Article
- A genome sequence for the threatened whitebark pine.G3 (Bethesda, Md.) · 2024Article
- The genome of the Wollemi pine, a critically endangered "living fossil" unchanged since the Cretaceous, reveals extensive ancient transposon activity.bioRxiv : the preprint server for biology · 2023Article
- Genomic and Bioinformatic Resources for Perennial Fruit Species.Current genomics · 2022Review
- From Genome Sequencing to CRISPR-Based Genome Editing for Climate-Resilient Forest Trees.International journal of molecular sciences · 2022Review
- qtlXplorer: an online systems genetics browser in the Eucalyptus Genome Integrative Explorer (EucGenIE).BMC bioinformatics · 2021Article
- Recommender-as-a-Service with Chatbot Guided Domain-science Knowledge Discovery in a Science Gateway.Concurrency and computation : practice & experience · 2021Article
- Challenges for FAIR-compliant description and comparison of crop phenotype data with standardized controlled vocabularies.Database : the journal of biological databases and curation · 2021Article
- Tripal MegaSearch: a tool for interactive and customizable query and download of big data.Database : the journal of biological databases and curation · 2021Article
- A Reference Genome Sequence for Giant Sequoia.G3 (Bethesda, Md.) · 2020Article
- Genomic basis of white pine blister rust quantitative disease resistance and its relationship with qualitative resistance.The Plant journal : for cell and molecular biology · 2020Article
- Article
- Cyberinfrastructure and resources to enable an integrative approach to studying forest trees.Evolutionary applications · 2020Article
- Experimental Design and Sample Preparation in Forest Tree Metabolomics.Metabolites · 2019Review
- A Metabolomics and Transcriptomics Resource for Identifying Candidate Genes in the Biosynthesis of Specialised Metabolites in Populus tremula.Physiologia plantarumArticle
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
18 authors at 5 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Despite tremendous advancements in high throughput sequencing, the vast majority of tree genomes, and in particular, forest trees, remain elusive. Although primary databases store genetic resources for just over 2,000 forest tree species, these are largely focused on sequence storage, basic genome assemblies, and functional assignment through existing pipelines. The tree databases reviewed here serve as secondary repositories for community data. They vary in their focal species, the data they curate, and the analytics provided, but they are united in moving toward a goal of centralizing both data access and analysis. They provide frameworks to view and update annotations for complex genomes, interrogate systems level expression profiles, curate data for comparative genomics, and perform real-time analysis with genotype and phenotype data. The organism databases of today are no longer simply catalogs or containers of genetic information. These repositories represent integrated cyberinfrastructure that support cross-site queries and analysis in web-based environments. These resources are striving to integrate across diverse experimental designs, sequence types, and related measures through ontologies, community standards, and web services. Efficient, simple, and robust platforms that enhance the data generated by the research community, contribute to improving forest health and productivity.
Indexed as
Identifiers
What OpenQuestion holds
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.