@inproceedings{7438a1ec97da4e4f83c5806ca1db0945,
title = "POKR: Building a Computable Heterogeneous Knowledge Resource for Precision Oncology",
abstract = "Precision oncology is expected to improve selection of targeted therapies, tailored to individual patients and ultimately improve cancer patients' outcomes. Several cancer genetics knowledge databases have been successfully developed for such purposes, including CIViC and OncoKB, with active community-based curations and scoring of genetic-treatment evidences. Although many studies were conducted based on each knowledge base respectively, the integrative analysis across both knowledge bases remains largely unexplored. Thus, there exists an urgent need for a heterogeneous precision oncology knowledge resource with computational power to support drug repurposing discovery in a timely manner, especially for life-threatening cancer. In this pilot study, we built a heterogeneous precision oncology knowledge resource (POKR) by integrating CIViC and OncoKB, in order to incorporate unique information contained in each knowledge base and make associations amongst biomedical entities (e.g., gene, drug, disease) computable and measurable via training POKR graph embeddings. All the relevant codes, database dump files, and pre-trained POKR embeddings can be accessed through the following URL: https://github.com/shenfc/POKR.",
keywords = "Computable Heterogeneous Knowledge Resource, Knowledge Graph Embeddings, Precision Oncology",
author = "Yanbo Guo and Chen Wang and Raymond Moore and Hongfang Liu and Feichen Shen",
note = "Funding Information: This work has been supported by the Gerstner Family Foundation, Center for Individualized Medicine (CIM) of Mayo Clinic, and Genentech Research Fund in Individualized Medicine. Publisher Copyright: {\textcopyright} 2022 International Medical Informatics Association (IMIA) and IOS Press.; 18th World Congress on Medical and Health Informatics: One World, One Health - Global Partnership for Digital Innovation, MEDINFO 2021 ; Conference date: 02-10-2021 Through 04-10-2021",
year = "2022",
month = jun,
day = "6",
doi = "10.3233/SHTI220071",
language = "English (US)",
series = "Studies in Health Technology and Informatics",
publisher = "IOS Press BV",
pages = "243--247",
editor = "Paula Otero and Philip Scott and Martin, {Susan Z.} and Elaine Huesing",
booktitle = "MEDINFO 2021",
address = "Netherlands",
}