Rigden Daniel J, Fernández-Suárez Xosé M, Galperin Michael Y
Institute of Integrative Biology, University of Liverpool, Crown Street, Liverpool L69 7ZB, UK
Thermo Fisher Scientific, Inchinnan Business Park, Paisley, Renfrew PA4 9RF, UK.
Nucleic Acids Res. 2016 Jan 4;44(D1):D1-6. doi: 10.1093/nar/gkv1356.
The 2016 Database Issue of Nucleic Acids Research starts with overviews of the resources provided by three major bioinformatics centers, the U.S. National Center for Biotechnology Information (NCBI), the European Bioinformatics Institute (EMBL-EBI) and Swiss Institute for Bioinformatics (SIB). Also included are descriptions of 62 new databases and updates on 95 databases that have been previously featured in NAR plus 17 previously described elsewhere. A number of papers in this issue deal with resources on nucleic acids, including various kinds of non-coding RNAs and their interactions, molecular dynamics simulations of nucleic acid structure, and two databases of super-enhancers. The protein database section features important updates on the EBI's Pfam, PDBe and PRIDE databases, as well as a variety of resources on pathways, metabolomics and metabolic modeling. This issue also includes updates on popular metagenomics resources, such as MG-RAST, EBI Metagenomics, and probeBASE, as well as a newly compiled Human Pan-Microbe Communities database. A significant fraction of the new and updated databases are dedicated to the genetic basis of disease, primarily cancer, and various aspects of drug research, including resources for patented drugs, their side effects, withdrawn drugs, and potential drug targets. A further six papers present updated databases of various antimicrobial and anticancer peptides. The entire Database Issue is freely available online on the Nucleic Acids Research website (http://nar.oxfordjournals.org/). The NAR online Molecular Biology Database Collection, http://www.oxfordjournals.org/nar/database/c/, has been updated with the addition of 88 new resources and removal of 23 obsolete websites, which brought the current listing to 1685 databases.
《核酸研究》2016年数据库专刊开篇是对三个主要生物信息学中心所提供资源的概述，这三个中心分别是美国国家生物技术信息中心（NCBI）、欧洲生物信息学研究所（EMBL-EBI）和瑞士生物信息学研究所（SIB）。还包括对62个新数据库的描述以及对95个曾在《核酸研究》上专题介绍过的数据库的更新，另外还有17个之前在其他地方描述过的数据库。本期的多篇论文涉及核酸相关资源，包括各类非编码RNA及其相互作用、核酸结构的分子动力学模拟，以及两个超级增强子数据库。蛋白质数据库部分重点介绍了EBI的Pfam数据库、蛋白质数据银行欧洲节点（PDBe）数据库和蛋白质组学鉴定数据库（PRIDE）的重要更新，以及关于代谢途径、代谢组学和代谢建模的各种资源。本期还包括对一些热门宏基因组学资源的更新，如MG-RAST、EBI宏基因组学和探针数据库（probeBASE），以及一个新编纂的人类泛微生物群落数据库。新的和更新的数据库中有很大一部分致力于疾病的遗传基础研究，主要是癌症研究，以及药物研究的各个方面，包括专利药物资源、其副作用、撤市药物和潜在药物靶点。另有六篇论文介绍了各种抗菌和抗癌肽的更新数据库。整个数据库专刊可在《核酸研究》网站（http://nar.oxfordjournals.org/）上免费在线获取。《核酸研究》在线分子生物学数据库合集（http://www.oxfordjournals.org/nar/database/c/）已更新，新增了88个资源，并移除了23个过时的网站，目前该合集列出了1685个数据库。
