• 文献检索
  • 文档翻译
  • 深度研究
  • 学术资讯
  • Suppr Zotero 插件Zotero 插件
  • 邀请有礼
  • 套餐&价格
  • 历史记录
应用&插件
Suppr Zotero 插件Zotero 插件浏览器插件Mac 客户端Windows 客户端微信小程序
定价
高级版会员购买积分包购买API积分包
服务
文献检索文档翻译深度研究API 文档MCP 服务
关于我们
关于 Suppr公司介绍联系我们用户协议隐私条款
关注我们

Suppr 超能文献

核心技术专利：CN118964589B侵权必究
粤ICP备2023148730 号-1Suppr @ 2026

文献检索

告别复杂PubMed语法，用中文像聊天一样搜索，搜遍4000万医学文献。AI智能推荐，让科研检索更轻松。

立即免费搜索

文件翻译

保留排版，准确专业，支持PDF/Word/PPT等文件格式，支持 12+语言互译。

免费翻译文档

深度研究

AI帮你快速写综述，25分钟生成高质量综述，智能提取关键信息，辅助科研写作。

立即免费体验

R 蜘蛛：通过整合 Reactome 和 KEGG 数据库中的信号和代谢途径，对基因列表进行网络分析。

R spider: a network-based analysis of gene lists by combining signaling and metabolic pathways from Reactome and KEGG databases.

机构信息

Helmholtz Zentrum München-German Research Center for Environmental Health (GmbH), Institute for Bioinformatics and Systems Biology, Ingolstädter Landstrasse 1, D-85764 Neuherberg, Germany.

出版信息

Nucleic Acids Res. 2010 Jul;38(Web Server issue):W78-83. doi: 10.1093/nar/gkq482. Epub 2010 Jun 2.

DOI:10.1093/nar/gkq482
PMID:20519200
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC2896180/
Abstract

R spider is a web-based tool for the analysis of a gene list using the systematic knowledge of core pathways and reactions in human biology accumulated in the Reactome and KEGG databases. R spider implements a network-based statistical framework, which provides a global understanding of gene relations in the supplied gene list, and fully exploits the Reactome and KEGG knowledge bases. R spider provides a user-friendly dialog-driven web interface for several model organisms and supports most available gene identifiers. R spider is freely available at http://mips.helmholtz-muenchen.de/proj/rspider.

摘要

R spider 是一个基于网络的工具，用于使用在 Reactome 和 KEGG 数据库中积累的人类生物学核心途径和反应的系统知识来分析基因列表。R spider 实现了基于网络的统计框架，该框架提供了对所提供基因列表中基因关系的全局理解，并充分利用了 Reactome 和 KEGG 知识库。R spider 为几种模式生物提供了用户友好的对话框驱动的网络界面，并支持大多数可用的基因标识符。R spider 可在 http://mips.helmholtz-muenchen.de/proj/rspider 上免费获得。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/138f/2896180/bea4235807e5/gkq482f1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/138f/2896180/bea4235807e5/gkq482f1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/138f/2896180/bea4235807e5/gkq482f1.jpg

相似文献

1
R spider: a network-based analysis of gene lists by combining signaling and metabolic pathways from Reactome and KEGG databases.R 蜘蛛：通过整合 Reactome 和 KEGG 数据库中的信号和代谢途径，对基因列表进行网络分析。
Nucleic Acids Res. 2010 Jul;38(Web Server issue):W78-83. doi: 10.1093/nar/gkq482. Epub 2010 Jun 2.
2
MADNet: microarray database network web server.MADNet：微阵列数据库网络网络服务器。
Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W332-5. doi: 10.1093/nar/gkn289. Epub 2008 May 14.
3
Reactome pathway analysis to enrich biological discovery in proteomics data sets.Reactome 通路分析在蛋白质组学数据集的生物发现中富集。
Proteomics. 2011 Sep;11(18):3598-613. doi: 10.1002/pmic.201100066.
4
Reactome: a database of reactions, pathways and biological processes.Reactome：一个关于反应、通路和生物过程的数据库。
Nucleic Acids Res. 2011 Jan;39(Database issue):D691-7. doi: 10.1093/nar/gkq1018. Epub 2010 Nov 9.
5
PPI spider: a tool for the interpretation of proteomics data in the context of protein-protein interaction networks.PPI蜘蛛：一种在蛋白质-蛋白质相互作用网络背景下解释蛋白质组学数据的工具。
Proteomics. 2009 May;9(10):2740-9. doi: 10.1002/pmic.200800612.
6
VisANT: data-integrating visual framework for biological networks and modules.VisANT：用于生物网络和模块的数据整合可视化框架。
Nucleic Acids Res. 2005 Jul 1;33(Web Server issue):W352-7. doi: 10.1093/nar/gki431.
7
BioProfiling.de: analytical web portal for high-throughput cell biology.BioProfiling.de：高通量细胞生物学分析性网络门户。
Nucleic Acids Res. 2011 Jul;39(Web Server issue):W323-7. doi: 10.1093/nar/gkr372. Epub 2011 May 23.
8
KEGG Atlas mapping for global analysis of metabolic pathways.用于代谢途径全局分析的KEGG图谱映射
Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W423-6. doi: 10.1093/nar/gkn282. Epub 2008 May 13.
9
ConsensusPathDB--a database for integrating human functional interaction networks.共识途径数据库——一个整合人类功能相互作用网络的数据库。
Nucleic Acids Res. 2009 Jan;37(Database issue):D623-8. doi: 10.1093/nar/gkn698. Epub 2008 Oct 21.
10
Installing a local copy of the Reactome Web site and database.安装Reactome网站和数据库的本地副本。
Curr Protoc Bioinformatics. 2008 Mar;Chapter 9:Unit 9.10. doi: 10.1002/0471250953.bi0910s21.

引用本文的文献

1
Exploration of the Shared Molecular Mechanisms between COVID-19 and Neurodegenerative Diseases through Bioinformatic Analysis.通过生物信息学分析探索 COVID-19 和神经退行性疾病之间的共享分子机制。
Int J Mol Sci. 2023 Mar 2;24(5):4839. doi: 10.3390/ijms24054839.
2
Genome-wide identification, characterization, and expression analysis of UDP-glycosyltransferase genes associated with secondary metabolism in alfalfa ( L.).紫花苜蓿（Medicago sativa L.）中与次生代谢相关的UDP-糖基转移酶基因的全基因组鉴定、表征及表达分析
Front Plant Sci. 2022 Sep 30;13:1001206. doi: 10.3389/fpls.2022.1001206. eCollection 2022.
3

本文引用的文献

1
GeneSet2miRNA: finding the signature of cooperative miRNA activities in the gene lists.基因集到微小RNA：在基因列表中寻找协同微小RNA活性的特征
Nucleic Acids Res. 2009 Jul;37(Web Server issue):W323-8. doi: 10.1093/nar/gkp313. Epub 2009 May 6.
2
PPI spider: a tool for the interpretation of proteomics data in the context of protein-protein interaction networks.PPI蜘蛛：一种在蛋白质-蛋白质相互作用网络背景下解释蛋白质组学数据的工具。
Proteomics. 2009 May;9(10):2740-9. doi: 10.1002/pmic.200800612.
3
PLIPS, an automatically collected database of protein lists reported by proteomics studies.
Tussah silkmoth pupae improve anti-tumor properties of (L.) Link by increasing the levels of major metabolite cordycepin.
柞蚕蛹通过提高主要代谢产物虫草素的水平来改善香菇的抗肿瘤特性。
RSC Adv. 2019 Feb 13;9(10):5480-5491. doi: 10.1039/c8ra09491h. eCollection 2019 Feb 11.
4
Clinical, genomics and networking analyses of a high-altitude native American Ecuadorian patient with congenital insensitivity to pain with anhidrosis: a case report.一名高海拔厄瓜多尔籍先天性无痛无汗症美国本土患者的临床、基因组学和网络分析：病例报告。
BMC Med Genomics. 2020 Aug 17;13(1):113. doi: 10.1186/s12920-020-00764-3.
5
Genetic Basis of Natural Variation in Spontaneous Grooming in .自发性梳理行为自然变异的遗传基础。
G3 (Bethesda). 2020 Sep 2;10(9):3453-3460. doi: 10.1534/g3.120.401360.
6
Haploinsufficiency of X-linked intellectual disability gene CASK induces post-transcriptional changes in synaptic and cellular metabolic pathways.X 连锁智力障碍基因 CASK 的杂合性缺失导致突触和细胞代谢途径的转录后变化。
Exp Neurol. 2020 Jul;329:113319. doi: 10.1016/j.expneurol.2020.113319. Epub 2020 Apr 17.
7
OncoOmics approaches to reveal essential genes in breast cancer: a panoramic view from pathogenesis to precision medicine.肿瘤组学方法揭示乳腺癌中的关键基因：从发病机制到精准医学的全景观点。
Sci Rep. 2020 Mar 24;10(1):5285. doi: 10.1038/s41598-020-62279-2.
8
- and -acting variants contribute to survivorship in a naïve population exposed to ryanoid insecticides.并且-作用变体有助于在接触拟除虫菊酯杀虫剂的幼稚种群中存活。
Proc Natl Acad Sci U S A. 2019 May 21;116(21):10424-10429. doi: 10.1073/pnas.1821713116. Epub 2019 May 7.
9
Roles of , , and in tumourigenic transformation of NIH3T3 cell.、、和在NIH3T3细胞致瘤转化中的作用。
J Genet. 2018 Dec;97(5):1155-1168.
10
Gene prioritization, communality analysis, networking and metabolic integrated pathway to better understand breast cancer pathogenesis.基因优先级排序、共性分析、网络和代谢综合途径，以更好地理解乳腺癌发病机制。
Sci Rep. 2018 Nov 12;8(1):16679. doi: 10.1038/s41598-018-35149-1.
PLIPS是一个由蛋白质组学研究报告的蛋白质列表自动收集数据库。
J Proteome Res. 2009 Mar;8(3):1193-7. doi: 10.1021/pr800804d.
4
The DICS repository: module-assisted analysis of disease-related gene lists.DICS 知识库：疾病相关基因列表的模块辅助分析
Bioinformatics. 2009 Mar 15;25(6):830-1. doi: 10.1093/bioinformatics/btp055. Epub 2009 Jan 28.
5
KEGG spider: interpretation of genomics data in the context of the global gene metabolic network.KEGG 蜘蛛：在全球基因代谢网络背景下对基因组学数据的解读
Genome Biol. 2008;9(12):R179. doi: 10.1186/gb-2008-9-12-r179. Epub 2008 Dec 18.
6
A novel signaling pathway impact analysis.一种新型信号通路影响分析。
Bioinformatics. 2009 Jan 1;25(1):75-82. doi: 10.1093/bioinformatics/btn577. Epub 2008 Nov 5.
7
Reactome knowledgebase of human biological pathways and processes.人类生物途径和过程的Reactome知识库。
Nucleic Acids Res. 2009 Jan;37(Database issue):D619-22. doi: 10.1093/nar/gkn863. Epub 2008 Nov 3.
8
GraphWeb: mining heterogeneous biological networks for gene modules with functional significance.GraphWeb：挖掘具有功能意义的基因模块的异质生物网络
Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W452-9. doi: 10.1093/nar/gkn230. Epub 2008 May 6.
9
ProfCom: a web tool for profiling the complex functionality of gene groups identified from high-throughput data.ProfCom：一种用于剖析从高通量数据中识别出的基因群组复杂功能的网络工具。
Nucleic Acids Res. 2008 Jul 1;36(Web Server issue):W347-51. doi: 10.1093/nar/gkn239. Epub 2008 May 6.
10
Novel and highly recurrent chromosomal alterations in Sézary syndrome.蕈样肉芽肿综合征中新型且高度复发性的染色体改变。
Cancer Res. 2008 Apr 15;68(8):2689-98. doi: 10.1158/0008-5472.CAN-07-6398.