Bioinformatics Services Division, UNC Charlotte, Charlotte, NC, USA.
Department of Bioinformatics and Genomics, UNC Charlotte, Charlotte, NC, USA.
BMC Res Notes. 2021 Nov 27;14(1):433. doi: 10.1186/s13104-021-05835-x.
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.
We created the Aliment to Bodily Condition Knowledgebase (ABCkb) to connect plants to human health by creating a stepwise path from plant [Formula: see text] plant product [Formula: see text] human gene [Formula: see text] pathways [Formula: see text] 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 ).
加工食品的过度消费导致肥胖和 2 型糖尿病等与饮食有关的慢性疾病发病率上升。尽管富含新鲜水果和蔬菜的饮食与更健康的结果有关，但这些关系的具体机制还了解甚少。研究植物植物化学物质生产和培育计划，或分别研究营养补充剂对健康的影响的实验，其结果是稀疏的、孤立的，并且难以在人类健康和农业领域之间进行整合。为了通过其分子机制将植物产品与健康结果联系起来，需要一个集成的计算资源。
我们创建了 Aliment to Bodily Condition Knowledgebase（ABCkb），通过从植物[化学式：见文本]植物产物[化学式：见文本]人类基因[化学式：见文本]途径[化学式：见文本]适应症创建一个逐步的路径，将植物与人类健康联系起来。ABCkb 集成了 11 个经过精心策划的来源，以及通过将关系从 Medline 摘要加载到图形数据库中挖掘出的关系，该图形数据库通过 Docker 容器部署。这个新资源，以可查询的容器形式提供，并带有用户友好的界面，将植物产品与人类健康结果联系起来，以生成营养假设。所有使用的脚本都可在 github 上获得（https://github.com/atrautm1/ABCkb），同时还提供了构建知识库的基本说明和可浏览的界面（https://abckb.charlotte.edu）。
