Ensembl Genomes 2013: scaling up access to genome-wide data.
Ensembl Genomes 2013: scaling up access to genome-wide data.
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DOI：
10.1093/nar/gkt979
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发表时间：
2014-01
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;Christensen M;Davis P;Falin LJ;Grabmueller C;Hughes DS;Humphrey J;Kerhornou A;Khobova J;Langridge N;McDowall MD;Maheswari U;Maslen G;Nuhn M;Ong CK;Paulini M;Pedro H;Toneva I;Tuli MA;Walts B;Williams G;Wilson D;Youens-Clark K;Monaco MK;Stein J;Wei X;Ware D;Bolser DM;Howe KL;Kulesha E;Lawson D;Staines DM
Ensembl Genomes (http://www.ensemblgenomes.org) 是非脊椎动物基因组规模数据的整合资源。该项目利用和扩展了在以脊椎动物为重点的 Ensembl 项目背景下开发的基因组注释、分析和传播技术，并通过一套一致的程序化和交互界面为非脊椎动物物种提供了一套补充资源。这些提供了对数据的访问，包括参考序列、基因模型、转录数据、多态性和比较分析。本文提供了有关该资源的先前出版物的更新，重点关注最新进展。其中包括添加重要的新基因组（和相关数据集），包括农作物、人类疾病载体和真核病原体。此外，该资源还扩大了细菌基因组的代表性，现在包括 9000 多种细菌的基因组。已经开发了特定的网络扩展和编程接口来支持用户浏览这些大型数据集。展望未来，随着生命各个领域中可用基因组数量的增加，允许有针对性地选择数据进行可视化和下载的分析工具在未来可能会变得越来越重要，并且在表示细菌数据时面临的一些挑战在未来可能会成为真核生物的普遍现象。
Ensembl Genomes (http://www.ensemblgenomes.org) is an integrating resource for genome-scale data from non-vertebrate species. The project exploits and extends technologies for genome annotation, analysis and dissemination, developed in the context of the vertebrate-focused Ensembl project, and provides a complementary set of resources for non-vertebrate species through a consistent set of programmatic and interactive interfaces. These provide access to data including reference sequence, gene models, transcriptional data, polymorphisms and comparative analysis. This article provides an update to the previous publications about the resource, with a focus on recent developments. These include the addition of important new genomes (and related data sets) including crop plants, vectors of human disease and eukaryotic pathogens. In addition, the resource has scaled up its representation of bacterial genomes, and now includes the genomes of over 9000 bacteria. Specific extensions to the web and programmatic interfaces have been developed to support users in navigating these large data sets. Looking forward, analytic tools to allow targeted selection of data for visualization and download are likely to become increasingly important in future as the number of available genomes increases within all domains of life, and some of the challenges faced in representing bacterial data are likely to become commonplace for eukaryotes in future.
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影响因子：
3.7
作者：
Weetman D;Wilding CS;Steen K;Morgan JC;Simard F;Donnelly MJ
通讯作者：
Donnelly MJ
影响因子：
14.9
作者：
Hunter S;Jones P;Mitchell A;Apweiler R;Attwood TK;Bateman A;Bernard T;Binns D;Bork P;Burge S;de Castro E;Coggill P;Corbett M;Das U;Daugherty L;Duquenne L;Finn RD;Fraser M;Gough J;Haft D;Hulo N;Kahn D;Kelly E;Letunic I;Lonsdale D;Lopez R;Madera M;Maslen J;McAnulla C;McDowall J;McMenamin C;Mi H;Mutowo-Muellenet P;Mulder N;Natale D;Orengo C;Pesseat S;Punta M;Quinn AF;Rivoire C;Sangrador-Vegas A;Selengut JD;Sigrist CJ;Scheremetjew M;Tate J;Thimmajanarthanan M;Thomas PD;Wu CH;Yeats C;Yong SY
通讯作者：
Yong SY
影响因子：
14.9
作者：
Salgado H;Peralta-Gil M;Gama-Castro S;Santos-Zavaleta A;Muñiz-Rascado L;García-Sotelo JS;Weiss V;Solano-Lira H;Martínez-Flores I;Medina-Rivera A;Salgado-Osorio G;Alquicira-Hernández S;Alquicira-Hernández K;López-Fuentes A;Porrón-Sotelo L;Huerta AM;Bonavides-Martínez C;Balderas-Martínez YI;Pannier L;Olvera M;Labastida A;Jiménez-Jacinto V;Vega-Alvarado L;Del Moral-Chávez V;Hernández-Alvarez A;Morett E;Collado-Vides J
通讯作者：
Collado-Vides J
影响因子：
14.9
作者：
Yook K;Harris TW;Bieri T;Cabunoc A;Chan J;Chen WJ;Davis P;de la Cruz N;Duong A;Fang R;Ganesan U;Grove C;Howe K;Kadam S;Kishore R;Lee R;Li Y;Muller HM;Nakamura C;Nash B;Ozersky P;Paulini M;Raciti D;Rangarajan A;Schindelman G;Shi X;Schwarz EM;Ann Tuli M;Van Auken K;Wang D;Wang X;Williams G;Hodgkin J;Berriman M;Durbin R;Kersey P;Spieth J;Stein L;Sternberg PW
通讯作者：
Sternberg PW
影响因子：
7
作者：
Vilella, Albert J.;Severin, Jessica;Birney, Ewan
通讯作者：
Birney, Ewan