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流感研究数据库：一个用于流感病毒研究的综合生物信息学资源。

Influenza Research Database: An integrated bioinformatics resource for influenza virus research.

作者信息

Zhang Yun, Aevermann Brian D, Anderson Tavis K, Burke David F, Dauphin Gwenaelle, Gu Zhiping, He Sherry, Kumar Sanjeev, Larsen Christopher N, Lee Alexandra J, Li Xiaomei, Macken Catherine, Mahaffey Colin, Pickett Brett E, Reardon Brian, Smith Thomas, Stewart Lucy, Suloway Christian, Sun Guangyu, Tong Lei, Vincent Amy L, Walters Bryan, Zaremba Sam, Zhao Hongtao, Zhou Liwei, Zmasek Christian, Klem Edward B, Scheuermann Richard H

机构信息

J. Craig Venter Institute, La Jolla, CA 92037, USA.

Virus and Prion Research Unit, National Animal Disease Center, USDA-ARS, Ames, IA 50010, USA.

出版信息

Nucleic Acids Res. 2017 Jan 4;45(D1):D466-D474. doi: 10.1093/nar/gkw857. Epub 2016 Sep 26.

DOI:10.1093/nar/gkw857
PMID:27679478
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC5210613/
Abstract

The Influenza Research Database (IRD) is a U.S. National Institute of Allergy and Infectious Diseases (NIAID)-sponsored Bioinformatics Resource Center dedicated to providing bioinformatics support for influenza virus research. IRD facilitates the research and development of vaccines, diagnostics and therapeutics against influenza virus by providing a comprehensive collection of influenza-related data integrated from various sources, a growing suite of analysis and visualization tools for data mining and hypothesis generation, personal workbench spaces for data storage and sharing, and active user community support. Here, we describe the recent improvements in IRD including the use of cloud and high performance computing resources, analysis and visualization of user-provided sequence data with associated metadata, predictions of novel variant proteins, annotations of phenotype-associated sequence markers and their predicted phenotypic effects, hemagglutinin (HA) clade classifications, an automated tool for HA subtype numbering conversion, linkouts to disease event data and the addition of host factor and antiviral drug components. All data and tools are freely available without restriction from the IRD website at https://www.fludb.org.

摘要

流感研究数据库（IRD）是美国国立过敏与传染病研究所（NIAID）资助的生物信息学资源中心，致力于为流感病毒研究提供生物信息学支持。IRD通过提供从各种来源整合的全面流感相关数据集、不断增加的用于数据挖掘和假设生成的分析与可视化工具套件、用于数据存储和共享的个人工作台空间以及活跃的用户社区支持，促进针对流感病毒的疫苗、诊断方法和治疗方法的研发。在此，我们描述了IRD最近的改进，包括云及高性能计算资源的使用、对用户提供的带有相关元数据的序列数据的分析与可视化、新型变异蛋白的预测、与表型相关的序列标记及其预测表型效应的注释、血凝素（HA）进化枝分类、HA亚型编号转换的自动化工具、与疾病事件数据的链接以及宿主因子和抗病毒药物成分的添加。所有数据和工具均可从IRD网站（https://www.fludb.org）免费获取且无限制。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/fa8e/5210613/c8a331d9a36e/gkw857fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/fa8e/5210613/8f8cc2799b37/gkw857fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/fa8e/5210613/fba37124201f/gkw857fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/fa8e/5210613/4dd2d5d03564/gkw857fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/fa8e/5210613/a35991783fbb/gkw857fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/fa8e/5210613/c8a331d9a36e/gkw857fig5.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/fa8e/5210613/8f8cc2799b37/gkw857fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/fa8e/5210613/fba37124201f/gkw857fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/fa8e/5210613/4dd2d5d03564/gkw857fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/fa8e/5210613/a35991783fbb/gkw857fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/fa8e/5210613/c8a331d9a36e/gkw857fig5.jpg

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