The Aliment to Bodily Condition knowledgebase (ABCkb): a database connecting plants and human health
Autor: | Cory Brouwer, Rachel Walstead, Jeremy J. Jay, Aaron Trautman, Richard Linchangco |
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Rok vydání: | 2021 |
Předmět: |
Science (General)
Databases Factual Text mining QH301-705.5 Interface (Java) Computer science Knowledge Bases MEDLINE Computational resource computer.software_genre General Biochemistry Genetics and Molecular Biology World Wide Web Q1-390 Human health Knowledge discovery Resource (project management) Knowledge extraction Vegetables Humans Biology (General) Graph database Precision nutrition General Medicine Neo4j Knowledgebase Plant Breeding Research Note Overconsumption Diabetes Mellitus Type 2 Scripting language Container (abstract data type) Medicine computer |
Zdroj: | BMC Research Notes BMC Research Notes, Vol 14, Iss 1, Pp 1-7 (2021) |
ISSN: | 1756-0500 |
DOI: | 10.1186/s13104-021-05835-x |
Popis: | Objective Overconsumption of processed foods has led to an increase in chronic diet-related diseases such obesity and type 2 diabetes. Although diets high in fresh fruits and vegetables are linked with healthier outcomes, the specific mechanisms for these relationships are poorly understood. Experiments examining plant phytochemical production and breeding programs, or separately on the health effects of nutritional supplements have yielded results that are sparse, siloed, and difficult to integrate between the domains of human health and agriculture. To connect plant products to health outcomes through their molecular mechanism an integrated computational resource is necessary. Results We created the Aliment to Bodily Condition Knowledgebase (ABCkb) to connect plants to human health by creating a stepwise path from plant $$\rightarrow$$ → plant product $$\rightarrow$$ → human gene $$\rightarrow$$ → pathways $$\rightarrow$$ → indication. ABCkb integrates 11 curated sources as well as relationships mined from Medline abstracts by loading into a graph database which is deployed via a Docker container. This new resource, provided in a queryable container with a user-friendly interface connects plant products with human health outcomes for generating nutritive hypotheses. All scripts used are available on github (https://github.com/atrautm1/ABCkb) along with basic directions for building the knowledgebase and a browsable interface is available (https://abckb.charlotte.edu). |
Databáze: | OpenAIRE |
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