Ensembl Plants: Integrating Tools for Visualizing, Mining, and Analyzing Plant Genomics Data
Ensembl Plants: Integrating Tools for Visualizing, Mining, and Analyzing Plant Genomics Data
复制标题
DOI：
10.1007/978-1-4939-3167-5_6
复制
发表时间：
2016-01-01
期刊：
影响因子：
--
通讯作者：
Kersey, Paul
中科院分区：
文献类型：
--
作者：
Bolser, Dan;Staines, Daniel M.;Kersey, Paul
Ensembl Plants (http://plants.ensembl.org)is)是一个整合资源，提供越来越多的已测序植物物种的基因组级信息（目前有33个）。提供的数据包括基因组序列、基因模型、功能注释和多态位点。变异数据提供了各种附加信息，包括群体结构、个体基因型、连锁和表型数据。在每个版本中，对全基因组和蛋白质序列进行比较分析，并提供基因组比对和基因树，以显示每个基因家族的隐含进化史。通过包含许多针对不同数据类型的专业接口的基因组浏览器以及用于编程访问和数据挖掘的各种附加方法，可以提供对数据的访问。这些途径与通过Ensembl接口提供的非植物物种（包括植物病原体、害虫和传粉媒介）基因组的途径一致。Ensembl Plants每年更新4-5次，并与我们在Gramene （http://www.gramene.org）和移植项目（http://www.transplantdb.org）中的国际合作伙伴合作开发。
Ensembl Plants (http://plants.ensembl.org)is an integrative resource presenting genome-scale information for a growing number of sequenced plant species (currently 33). Data provided includes genome sequence, gene models, functional annotation, and polymorphic loci. Various additional information are provided for variation data, including population structure, individual genotypes, linkage, and phenotype data. In each release, comparative analyses are performed on whole genome and protein sequences, and genome alignments and gene trees are made available that show the implied evolutionary history of each gene family. Access to the data is provided through a genome browser incorporating many specialist interfaces for different data types, and through a variety of additional methods for programmatic access and data mining. These access routes are consistent with those offered through the Ensembl interface for the genomes of non-plant species, including those of plant pathogens, pests, and pollinators.Ensembl Plants is updated 4-5 times a year and is developed in collaboration with our international partners in the Gramene (http://www.gramene.org) and transPLANT projects (http://www.transplantdb.org)