The cellular microscopy phenotype ontology.
The cellular microscopy phenotype ontology.
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DOI：
10.1186/s13326-016-0074-0
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发表时间：
2016
影响因子：
1.9
通讯作者：
Rustici G
中科院分区：
文献类型：
--
作者：
Jupp S;Malone J;Burdett T;Heriche JK;Williams E;Ellenberg J;Parkinson H;Rustici G
来自高内容筛选的表型数据目前使用自由文本进行注释，从而阻止了独立数据集的整合，包括在不同生物领域（例如细胞系、小鼠和人体组织）中生成的数据集。我们提出了细胞显微镜表型本体论（CMPO），这是一种物种中性本体论，用于描述与全细胞、细胞成分、细胞过程和细胞群体相关的表型观察。 CMPO 与相关本体论工作兼容，允许未来表型数据的跨物种整合。 CMPO 是按照管理者驱动的方法开发的，其中表型数据由专家生物学家按照实体质量 (EQ) 模式进行注释。这些 EQ 随后根据既定的后期合成流程转换为新的 CMPO 术语。 CMPO 目前用于注释与存储在多个图像存储库（包括图像数据存储库 (IDR)、MitoSys 项目数据库和细胞表型数据库）中的高内容筛选数据集相关的表型，以方便数据浏览和发现。
Phenotypic data derived from high content screening is currently annotated using free-text, thus preventing the integration of independent datasets, including those generated in different biological domains, such as cell lines, mouse and human tissues. We present the Cellular Microscopy Phenotype Ontology (CMPO), a species neutral ontology for describing phenotypic observations relating to the whole cell, cellular components, cellular processes and cell populations. CMPO is compatible with related ontology efforts, allowing for future cross-species integration of phenotypic data. CMPO was developed following a curator-driven approach where phenotype data were annotated by expert biologists following the Entity-Quality (EQ) pattern. These EQs were subsequently transformed into new CMPO terms following an established post composition process. CMPO is currently being utilized to annotate phenotypes associated with high content screening datasets stored in several image repositories including the Image Data Repository (IDR), MitoSys project database and the Cellular Phenotype Database to facilitate data browsing and discoverability.