Gephebase, a database of genotype-phenotype relationships for natural and domesticated variation in Eukaryotes
Gephebase, a database of genotype-phenotype relationships for natural and domesticated variation in Eukaryotes
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DOI：
10.1093/nar/gkz796
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发表时间：
2020-01-08
影响因子：
14.9
通讯作者：
Martin, Arnaud
中科院分区：
文献类型：
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作者：
Courtier-Orgogozo, Virginie;Arnoult, Laurent;Martin, Arnaud
Gephebase是一个人工管理的数据库，汇集了我们积累的基因和突变知识，这些基因和突变是所有真核生物（主要是动物，植物和酵母）中自然，驯化和实验表型变异的基础。Gephebase旨在汇编基因型-表型关联（基于连锁作图、关联作图或候选基因方法）得到较好支持的研究。实验室微生物中的人类临床性状和异常突变表型不包括在内，可在其他数据库（例如OMIM、OMIA、Monarch Initiative）中找到。Gephebase包含超过1700个条目。每个条目对应于给定基因的等位基因差异及其在两个物种或同一物种的两个个体之间的相关表型变化，并且富含分子细节、分类信息和文献信息。用户可以很容易地浏览条目，并使用布尔运算符（例如转座因子，蛇，类胡萝卜素含量，Doebley）在各个级别执行搜索。数据可以电子表格格式导出。该数据库允许进行荟萃分析，以提取有关生活世界和研究领域的全球趋势。Gephebase还应帮助育种者、自然资源保护者和其他人确定有希望的目标基因，用于作物改良、寄生虫/害虫控制、生物保护和遗传诊断。可在www.gephebase.org免费查阅。
Gephebase is a manually-curated database compiling our accumulated knowledge of the genes and mutations that underlie natural, domesticated and experimental phenotypic variation in all Eukaryotes-mostly animals, plants and yeasts. Gephebase aims to compile studies where the genotype-phenotype association (based on linkage mapping, association mapping or a candidate gene approach) is relatively well supported. Human clinical traits and aberrant mutant phenotypes in laboratory organisms are not included and can be found in other databases (e.g. OMIM, OMIA, Monarch Initiative). Gephebase contains more than 1700 entries. Each entry corresponds to an allelic difference at a given gene and its associated phenotypic change(s) between two species or two individuals of the same species, and is enriched with molecular details, taxonomic information, and bibliographic information. Users can easily browse entries and perform searches at various levels using boolean operators (e.g. transposable elements, snakes, carotenoid content, Doebley). Data is exportable in spreadsheet format. This database allows to perform meta-analyses to extract global trends about the living world and the research fields. Gephebase should also help breeders, conservationists and others to identify promising target genes for crop improvement, parasite/pest control, bioconservation and genetic diagnostic. It is freely available at www.gephebase.org.