Ensembl Genomes 2016: more genomes, more complexity.
Ensembl Genomes 2016: more genomes, more complexity.
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DOI：
10.1093/nar/gkv1209
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发表时间：
2016-01-04
影响因子：
14.9
通讯作者：
Staines DM
中科院分区：
文献类型：
--
作者：
Kersey PJ;Allen JE;Armean I;Boddu S;Bolt BJ;Carvalho-Silva D;Christensen M;Davis P;Falin LJ;Grabmueller C;Humphrey J;Kerhornou A;Khobova J;Aranganathan NK;Langridge N;Lowy E;McDowall MD;Maheswari U;Nuhn M;Ong CK;Overduin B;Paulini M;Pedro H;Perry E;Spudich G;Tapanari E;Walts B;Williams G;Tello-Ruiz M;Stein J;Wei S;Ware D;Bolser DM;Howe KL;Kulesha E;Lawson D;Maslen G;Staines DM
Ensembl Genomes（http：www.ensemblgenomes.org）是一个非脊椎动物物种基因组规模数据的综合资源，补充了在Ensembl项目（http：//www.example.com）背景下开发的脊椎动物基因组学资源。www.ensembl.org这两个资源共同为丰富的数据提供了一套一致的程序化和交互式界面，包括参考序列、基因模型、转录数据、遗传变异和比较分析。本文提供了对以前出版物的更新，重点是最近的发展。其中包括开发新的分析和观点来代表多倍体基因组（其中面包小麦是主要范例）;以及资源的持续升级，现在包括超过23，000个细菌基因组，400个真菌基因组和100个原生生物基因组，此外还有55个来自无脊椎后生动物的基因组和39个来自植物的基因组。包含的基因组数量的急剧增加是在参考基因组背景下自动整合存档数据（基因组序列，以及相关的RNA序列数据和变体调用）并通过Ensembl用户界面提供的更广泛努力的一部分。
Ensembl Genomes (http://www.ensemblgenomes.org) is an integrating resource for genome-scale data from non-vertebrate species, complementing the resources for vertebrate genomics developed in the context of the Ensembl project (http://www.ensembl.org). Together, the two resources provide a consistent set of programmatic and interactive interfaces to a rich range of data including reference sequence, gene models, transcriptional data, genetic variation and comparative analysis. This paper provides an update to the previous publications about the resource, with a focus on recent developments. These include the development of new analyses and views to represent polyploid genomes (of which bread wheat is the primary exemplar); and the continued up-scaling of the resource, which now includes over 23 000 bacterial genomes, 400 fungal genomes and 100 protist genomes, in addition to 55 genomes from invertebrate metazoa and 39 genomes from plants. This dramatic increase in the number of included genomes is one part of a broader effort to automate the integration of archival data (genome sequence, but also associated RNA sequence data and variant calls) within the context of reference genomes and make it available through the Ensembl user interfaces.