Department of Biomedical Informatics, Columbia University, New York, NY 10032, USA.
Center for Cellular and Molecular Therapeutics, Children's Hospital of Philadelphia, Philadelphia, PA 19104, USA.
Nucleic Acids Res. 2019 Jul 2;47(W1):W566-W570. doi: 10.1093/nar/gkz386.
We present Doc2Hpo, an interactive web application that enables interactive and efficient phenotype concept curation from clinical text with automated concept normalization using the Human Phenotype Ontology (HPO). Users can edit the HPO concepts automatically extracted by Doc2Hpo in real time, and export the extracted HPO concepts into gene prioritization tools. Our evaluation showed that Doc2Hpo significantly reduced manual effort while achieving high accuracy in HPO concept curation. Doc2Hpo is freely available at https://impact2.dbmi.columbia.edu/doc2hpo/. The source code is available at https://github.com/stormliucong/doc2hpo for local installation for protected health data.
我们展示了 Doc2Hpo，这是一个交互式网络应用程序，它使用人类表型本体 (HPO) 实现了从临床文本中进行交互式和高效的表型概念编纂，并自动进行概念规范化。用户可以实时编辑 Doc2Hpo 自动提取的 HPO 概念，并将提取的 HPO 概念导出到基因优先级工具中。我们的评估表明，Doc2Hpo 在实现 HPO 概念编纂的高准确性的同时，显著减少了人工工作量。Doc2Hpo 可在 https://impact2.dbmi.columbia.edu/doc2hpo/ 免费获得。源代码可在 https://github.com/stormliucong/doc2hpo 获得，可用于本地安装保护健康数据。
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