Ginseng Genome Database: an open-access platform for genomics of Panax ginseng.
Ginseng Genome Database: an open-access platform for genomics of Panax ginseng.
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DOI：
10.1186/s12870-018-1282-9
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发表时间：
2018-04-12
影响因子：
5.3
通讯作者：
Yang TJ
中科院分区：
文献类型：
--
作者：
Jayakodi M;Choi BS;Lee SC;Kim NH;Park JY;Jang W;Lakshmanan M;Mohan SVG;Lee DY;Yang TJ
人参（Panax ginseng C.A. Meyer）是一种多年生草本植物，在传统东方医学中使用已有数千年的历史。人参皂苷是这种植物中最重要的生物活性成分，对人体健康具有显着的药理作用。认识到这种植物对人类的重要性后，综合组学资源对于促进这种草药的基因组研究、分子育种和药理学研究变得不可或缺。最近报道了人参品种“Chunpoong”的第一批基因组序列草案。在这里，利用人参基因组草案、转录组和功能注释数据集，我们构建了人参基因组数据库http://ginsengdb.snu.ac.kr/，这是第一个提供全面人参基因组资源的开放平台。该数据库的当前版本提供了最新的基因组序列草案（大约 3000 Mbp 的支架序列）以及 59,352 个基因的结构和功能注释以及基于来自不同组织、生长阶段和治疗的转录组数据的基因数字表达。此外，还提供了可视化工具和来自各种分析的基因组数据。数据库中的所有数据均手动整理并集成在用户友好的查询页面中。该数据库为与人参和属于 Apiales 目的其他物种相关的一系列研究领域以及整个植物研究界提供了宝贵的资源。人参基因组数据库可访问http://ginsengdb.snu.ac.kr/。
The ginseng (Panax ginseng C.A. Meyer) is a perennial herbaceous plant that has been used in traditional oriental medicine for thousands of years. Ginsenosides, which have significant pharmacological effects on human health, are the foremost bioactive constituents in this plant. Having realized the importance of this plant to humans, an integrated omics resource becomes indispensable to facilitate genomic research, molecular breeding and pharmacological study of this herb. The first draft genome sequences of P. ginseng cultivar “Chunpoong” were reported recently. Here, using the draft genome, transcriptome, and functional annotation datasets of P. ginseng, we have constructed the Ginseng Genome Database http://ginsengdb.snu.ac.kr/, the first open-access platform to provide comprehensive genomic resources of P. ginseng. The current version of this database provides the most up-to-date draft genome sequence (of approximately 3000 Mbp of scaffold sequences) along with the structural and functional annotations for 59,352 genes and digital expression of genes based on transcriptome data from different tissues, growth stages and treatments. In addition, tools for visualization and the genomic data from various analyses are provided. All data in the database were manually curated and integrated within a user-friendly query page. This database provides valuable resources for a range of research fields related to P. ginseng and other species belonging to the Apiales order as well as for plant research communities in general. Ginseng genome database can be accessed at http://ginsengdb.snu.ac.kr/.
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影响因子：
4
作者：
Shang, Wenbin;Yang, Ying;Chen, Mingdao
通讯作者：
Chen, Mingdao
影响因子：
4.6
作者：
Kim K;Nguyen VB;Dong J;Wang Y;Park JY;Lee SC;Yang TJ
通讯作者：
Yang TJ
影响因子：
7
作者：
Skinner, Mitchell E.;Uzilov, Andrew V.;Holmes, Ian H.
通讯作者：
Holmes, Ian H.
影响因子：
12.3
作者：
Haas, Brian J.;Salzberg, Steven L.;Zhu, Wei;Pertea, Mihaela;Allen, Jonathan E.;Orvis, Joshua;White, Owen;Buell, C. Robin;Wortman, Jennifer R.
通讯作者：
Wortman, Jennifer R.
影响因子：
5.3
作者：
Jayakodi M;Lee SC;Lee YS;Park HS;Kim NH;Jang W;Lee HO;Joh HJ;Yang TJ
通讯作者：
Yang TJ