GOBASE: an organelle genome database
GOBASE: an organelle genome database
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DOI：
10.1093/nar/gkn819
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发表时间：
2009-01-01
影响因子：
14.9
通讯作者：
Burger, Gertraud
中科院分区：
文献类型：
--
作者：
OBrien, Emmet A.;Zhang, Yue;Burger, Gertraud
细胞器基因组数据库GOBASE，现在在其第21次发布（2008年6月），包含所有已公布的叶绿体编码序列（类似于913 000）和叶绿体编码序列（类似于250 000）从广泛的真核生物类群。对于所有的序列，有关基因、外显子、内含子、基因产物和分类学的信息，以及选定的基因组图谱和RNA二级结构都是可用的。最近对数据库功能的主要增强包括：（i）增加了用于RNA编辑数据的界面，使用多重比对显示取代、插入和缺失;（ii）向人类线粒体序列数据中增加了医学相关信息，如单倍型、SNP和相关疾病状态;（iii）增加了大肠杆菌和念珠藻的完全重新注释的基因组序列，以供参考和比较;以及（iv）一些界面改进，例如基因组和基因编码序列下载的可用性，以及更复杂的文献参考搜索功能，并在可用时链接到PubMed。未来的项目包括将GOBASE的功能转移到NCBI/GenBank，以便长期保存积累的专家信息。GOBASE数据库可在http://gobase.bcm.umontreal.ca/上找到。有关自定义和大规模数据检索的查询应发送至gobase@bch.umontreal.ca。
The organelle genome database GOBASE, now in its 21st release ( June 2008), contains all published mitochondrion-encoded sequences (similar to 913 000) and chloroplast-encoded sequences (similar to 250 000) from a wide range of eukaryotic taxa. For all sequences, information on related genes, exons, introns, gene products and taxonomy is available, as well as selected genome maps and RNA secondary structures. Recent major enhancements to database functionality include: (i) addition of an interface for RNA editing data, with substitutions, insertions and deletions displayed using multiple alignments; (ii) addition of medically relevant information, such as haplotypes, SNPs and associated disease states, to human mitochondrial sequence data; (iii) addition of fully reannotated genome sequences for Escherichia coli and Nostoc sp., for reference and comparison; and (iv) a number of interface enhancements, such as the availability of both genomic and gene-coding sequence downloads, and a more sophisticated literature reference search functionality with links to PubMed where available. Future projects include the transfer of GOBASE features to NCBI/GenBank, allowing long-term preservation of accumulated expert information. The GOBASE database can be found at http://gobase.bcm.umontreal.ca/. Queries about custom and large-scale data retrievals should be addressed to gobase@bch.umontreal.ca.