KEGG as a reference resource for gene and protein annotation.
KEGG as a reference resource for gene and protein annotation.
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DOI：
10.1093/nar/gkv1070
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发表时间：
2016-01-04
影响因子：
14.9
通讯作者：
Tanabe M
中科院分区：
文献类型：
--
作者：
Kanehisa M;Sato Y;Kawashima M;Furumichi M;Tanabe M
KEGG （http://www.kegg.jp/或http://www.genome.jp/kegg/）是一个集成的数据库资源，用于基因组序列的生物学解释和其他高通量数据。基因和蛋白质的分子功能与同源基团相关，并存储在KEGG同源（KO）数据库中。KEGG通路图、BRITE层次结构和KEGG模块被开发为KO节点网络，代表细胞和生物体的高级功能。目前，KEGG基因数据库中有超过4000个完整基因组标注了KO，这可以作为KEGG通路和其他分子网络的KO分配和后续重建的参考数据集。作为注释资源，进行了以下改进。首先，每个KO记录被重新检查，并与功能表征实验中使用的蛋白质序列数据相关联。其次，基因数据库现在包括病毒、质粒和未在完整基因组中表示的功能特征蛋白的附录类别。第三，利用基因数据库生成的无冗余泛基因组数据集，提供了新的自动标注服务器BlastKOALA和GhostKOALA。作为翻译生物信息学的资源，为抗菌素耐药性和药物相互作用网络创建了各种数据集。
KEGG (http://www.kegg.jp/ or http://www.genome.jp/kegg/) is an integrated database resource for biological interpretation of genome sequences and other high-throughput data. Molecular functions of genes and proteins are associated with ortholog groups and stored in the KEGG Orthology (KO) database. The KEGG pathway maps, BRITE hierarchies and KEGG modules are developed as networks of KO nodes, representing high-level functions of the cell and the organism. Currently, more than 4000 complete genomes are annotated with KOs in the KEGG GENES database, which can be used as a reference data set for KO assignment and subsequent reconstruction of KEGG pathways and other molecular networks. As an annotation resource, the following improvements have been made. First, each KO record is re-examined and associated with protein sequence data used in experiments of functional characterization. Second, the GENES database now includes viruses, plasmids, and the addendum category for functionally characterized proteins that are not represented in complete genomes. Third, new automatic annotation servers, BlastKOALA and GhostKOALA, are made available utilizing the non-redundant pangenome data set generated from the GENES database. As a resource for translational bioinformatics, various data sets are created for antimicrobial resistance and drug interaction networks.