Motivation Manual curation of genome-scale reconstructions is laborious, yet existing automated curation tools do not typically take species-specific experimental and curated genomic data into account. Results We developed Data-drivEn METabolic nEtwork Refinement (DEMETER), a Constraint-Based Reconstruction and Analysis (COBRA) Toolbox extension, which enables the efficient, simultaneous refinement of thousands of draft genome-scale reconstructions, while ensuring adherence to the quality standards in the field, agreement with available experimental data and refinement of pathways based on manually refined genome annotations. Availability and implementation DEMETER and tutorials are freely available at https://github.com/opencobra. Supplementary information Supplementary data are available at Bioinformatics online.

中文翻译：

---

DEMETER：由实验数据和精细基因注释指导的基因组规模重建的高效同步管理

动机 基因组规模重建的手动管理是费力的，但现有的自动管理工具通常不会考虑特定物种的实验和管理基因组数据。结果 我们开发了数据驱动的代谢网络优化 (DEMETER)，这是一种基于约束的重建和分析 (COBRA) 工具箱扩展，它可以高效、同步地改进数千个基因组规模重建草案，同时确保遵守质量标准该领域，与可用的实验数据一致，并根据手动改进的基因组注释改进路径。可用性和实施​​ DEMETER 和教程可在 https://github.com/opencobra 免费获得。补充信息 补充数据可在 Bioinformatics 在线获取。