The Disease Ontology Project: mechanistic profiles of human disease for biomedical and clinical research

疾病本体项目：用于生物医学和临床研究的人类疾病的机制概况

• 批准号: 10204783
• 负责人: Lynn Marie Schriml
• 金额: $ 65.54万
• 依托单位: UNIVERSITY OF MARYLAND BALTIMORE
• 依托单位国家: 美国
• 财政年份: 2017
• 资助国家: 美国
• 起止时间: 2017-09-14 至 2024-06-30
• 项目状态: 已结题
• 来源: https://reporter.nih.gov/project-details/10204783
• 关键词: Address; Algorithms; Alleles; Anatomy; Animal Model; Area; Biomedical Research; Classification; Clinical; Clinical Data; Clinical Research; Communities; Complex; Coupling; Data; Data Analyses; Data Element; Databases; Deposition; Development; Disease; Drug Targeting; Education; Educational workshop; Ensure; Environmental Exposure; Environmental Risk Factor; Epitopes; Etiology; Exposure to; Gap Junctions; Gene Targeting; Genes; Genetic; Genetic Research; Genetic Variation; Genomic medicine; Genomics; Goals; Immune; Knowledge; Link; Literature; Malignant Neoplasms; Medical Genetics; Molecular; NCI Thesaurus; Needs Assessment; Nomenclature; Online Mendelian Inheritance In Man; Ontology; Pathogenesis; Pathway interactions; Persons; Pharmaceutical Preparations; Phenotype; PubMed; Public Health; Publications; Publishing; Rare Diseases; Research; Research Personnel; Research Project Grants; Resources; Semantics; Services; Specialist; Standardization; Students; Symptoms; System; Terminology; Update; Variant; Vocabulary; base; biomedical ontology; cancer genetics; cancer subtypes; clinical care; clinically relevant; comparative; computerized tools; data integration; data integrity; data repository; disease classification; drug repurposing; education resources; experimental study; flexibility; genetic resource; genetic variant; genome annotation; human disease; improved; insight; knowledge base; lens; model organisms databases; novel; outreach; research and development; response; statistics; symposium; tool; training opportunity; transmission process; web interface

Human disease data is a cornerstone of biomedical research for identifying drug targets, connecting genetic variations to phenotypes, understanding molecular pathways relevant to novel treatments and coupling clinical care and biomedical research. Consequently, there is a significant need for a standardized representation of human disease to connect disease concepts across resources, to support development of computational tools that will enable robust data analysis and integration and to continually incorporate new insights regarding our understanding of disease pathogenesis. For the past 13 years, the Disease Ontology team has been focusing on developing and applying an etiology based Human Disease Ontology (DO) and providing the biomedical community with a knowledgebase of integrated rare and common disease terms to support disease annotations for genomes, genes, genetic variants, associated biomedical data and literature. Conservatively, based on available resource statistics, terms from the DO have been annotated to over 150,000 biomedical data elements and citations. We have developed the DO, representing 6,782 human diseases and the DO web interface (http://www.disease-ontology.org) and RESTful API to enable semantic exploration of disease etiology and aligned disease concepts representing 36,711 clinical vocabulary cross- references. The 10-fold increase of the number of published clinical and experimental studies per year (PubMed: Clinical Study) in the past four decades, with 43,401 PubMed articles in 2014 compared to 3,269 in 1975, has markedly expanded our understanding of disease mechanisms. We have identified two main areas of improvement in the DO (1.0) necessary to represent this growing body of knowledge: (1) representing cellular, molecular and environmental mechanisms of disease as distinct disease profiles within the DO and (2) representing alternative classifications of complex disease in order to address clinical use cases for complex diseases. We thus propose to develop the DO (2.0), an integrative disease mechanism framework for disease characterization and annotation, with the goal to represent distinct disease profiles and improve upon the existing single profile (DO 1.0) or mixed profile classifications (ORDO, NCIthesaurus, MonDO). We believe DO (2.0) will provide both genomic and clinical research communities with a versatile system that will enable researchers to perform more accurate and comprehensive analysis of common cellular, molecular or environmental disease mechanisms. Utilization of the DO will be promoted in the clinical and biomedical communities through high profile publications, conferences and workshops.

人类疾病数据是确定药物靶点的生物医学研究的基石，

项目成果

The DO-KB Knowledgebase: a 20-year journey developing the disease open science ecosystem.

• DOI: 10.1093/nar/gkad1051
• 发表时间: 2024-01-05
• 期刊: Nucleic acids research
• 影响因子: 14.9

Modeling the enigma of complex disease etiology.

• DOI: 10.1186/s12967-023-03987-x
• 发表时间: 2023-02-25
• 期刊: JOURNAL OF TRANSLATIONAL MEDICINE
• 影响因子: 7.4
• 作者: Schriml, Lynn M. M.;Lichenstein, Richard;Bisordi, Katharine;Bearer, Cynthia;Baron, J. Allen;Greene, Carol
• 通讯作者: Greene, Carol

A decade of GigaScience: 10 years of the evolving genomic and biomedical standards landscape.

• DOI: 10.1093/gigascience/giac047
• 发表时间: 2022-05-17
• 期刊: GigaScience
• 影响因子: 9.2

Diseasomics: Actionable machine interpretable disease knowledge at the point-of-care.

• DOI: 10.1371/journal.pdig.0000128
• 发表时间: 2022-10
• 期刊: PLOS digital health

The Human Disease Ontology 2022 update.

• DOI: 10.1093/nar/gkab1063
• 发表时间: 2022-01-07
• 期刊: Nucleic acids research
• 影响因子: 14.9
• 作者: Schriml LM;Munro JB;Schor M;Olley D;McCracken C;Felix V;Baron JA;Jackson R;Bello SM;Bearer C;Lichenstein R;Bisordi K;Dialo NC;Giglio M;Greene C
• 通讯作者: Greene C