PortEco: a resource for exploring bacterial biology through high-throughput data and analysis tools.
PortEco: a resource for exploring bacterial biology through high-throughput data and analysis tools.
复制标题
DOI：
10.1093/nar/gkt1203
复制
发表时间：
2014-01
影响因子：
14.9
通讯作者：
Altman T
中科院分区：
文献类型：
--
作者：
Hu JC;Sherlock G;Siegele DA;Aleksander SA;Ball CA;Demeter J;Gouni S;Holland TA;Karp PD;Lewis JE;Liles NM;McIntosh BK;Mi H;Muruganujan A;Wymore F;Thomas PD;Altman T
PortEco（porteco.org）旨在收集、整理和提供数据和分析工具，以支持大肠杆菌（以及最终其他细菌系统）的基础生物学研究。PortEco作为一个“虚拟”模型生物数据库实现，为用户提供一个统一的界面，同时集成来自各种来源的信息。PortEco的主要重点是使越来越多的高通量实验能够广泛应用于E。coli，并通过EcoliWiki和GONUTS系统利用社区注释。目前，PortEco包括来自数百个全基因组RNA表达研究的策划数据，来自数百种注释条件下单基因敲除的高通量表型分析，来自数十种不同DNA结合因子的染色质免疫沉淀实验以及核糖体分析实验，这些实验可以深入了解蛋白质表达。条件已经用一致的词汇表进行了注释，数据也经过了一致的规范化，使用户能够查找、比较和解释相关实验。PortEco包括数据分析工具，包括通过基因组浏览器进行聚类、富集分析和探索。PortEco搜索和数据分析工具与其姐妹站点EcoCyc的策划基因、代谢途径和调控内容广泛相关。
PortEco (http://porteco.org) aims to collect, curate and provide data and analysis tools to support basic biological research in Escherichia coli (and eventually other bacterial systems). PortEco is implemented as a ‘virtual’ model organism database that provides a single unified interface to the user, while integrating information from a variety of sources. The main focus of PortEco is to enable broad use of the growing number of high-throughput experiments available for E. coli, and to leverage community annotation through the EcoliWiki and GONUTS systems. Currently, PortEco includes curated data from hundreds of genome-wide RNA expression studies, from high-throughput phenotyping of single-gene knockouts under hundreds of annotated conditions, from chromatin immunoprecipitation experiments for tens of different DNA-binding factors and from ribosome profiling experiments that yield insights into protein expression. Conditions have been annotated with a consistent vocabulary, and data have been consistently normalized to enable users to find, compare and interpret relevant experiments. PortEco includes tools for data analysis, including clustering, enrichment analysis and exploration via genome browsers. PortEco search and data analysis tools are extensively linked to the curated gene, metabolic pathway and regulation content at its sister site, EcoCyc.
登录
查看更多内容
影响因子：
14.9
作者：
NCBI Resource Coordinators
通讯作者：
NCBI Resource Coordinators
影响因子：
14.9
作者：
Hunter S;Jones P;Mitchell A;Apweiler R;Attwood TK;Bateman A;Bernard T;Binns D;Bork P;Burge S;de Castro E;Coggill P;Corbett M;Das U;Daugherty L;Duquenne L;Finn RD;Fraser M;Gough J;Haft D;Hulo N;Kahn D;Kelly E;Letunic I;Lonsdale D;Lopez R;Madera M;Maslen J;McAnulla C;McDowall J;McMenamin C;Mi H;Mutowo-Muellenet P;Mulder N;Natale D;Orengo C;Pesseat S;Punta M;Quinn AF;Rivoire C;Sangrador-Vegas A;Selengut JD;Sigrist CJ;Scheremetjew M;Tate J;Thimmajanarthanan M;Thomas PD;Wu CH;Yeats C;Yong SY
通讯作者：
Yong SY
DOI：
10.1073/pnas.1309739110
发表时间：
2013-07-16
影响因子：
11.1
作者：
Liu, Xiaoqiu;Jiang, Huifeng;Roberts, Jeffrey W.
通讯作者：
Roberts, Jeffrey W.
DOI：
10.1073/pnas.0807227105
发表时间：
2008-12-09
影响因子：
11.1
作者：
Cho, Byung-Kwan;Barrett, Christian L.;Palsson, Bernhard O.
通讯作者：
Palsson, Bernhard O.
大肠杆菌K-12的构造框架，单基因敲除突变体：Keio Collection。
影响因子：
9.9
作者：
通讯作者：
--