ESTExplorer: an expressed sequence tag (EST) assembly and annotation platform.
ESTExplorer: an expressed sequence tag (EST) assembly and annotation platform.
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DOI：
10.1093/nar/gkm378
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发表时间：
2007-07
影响因子：
14.9
通讯作者：
Ranganathan S
中科院分区：
文献类型：
--
作者：
Nagaraj SH;Deshpande N;Gasser RB;Ranganathan S
表达的序列标签（EST）数据集的分析提供了一种快速且成本效益的方法来阐明组织的转录组，但需要几种用于组装和注释的计算方法管道使用一种“分布式控制方法”，其中最合适的生物信息学工具是在不同的专用处理器上实现的。由用户在概念转换后选择核位和蛋白质水平的用户总体输出是基因本体，在映射到蛋白质结构域和代谢途径方面的蛋白质功能识别已成功地注释了来自寄生虫的大型数据集，并将其作为寄生虫干预的潜在靶标。群集，可以在http://estexplorer.biolinfo.org上为学术界免费使用。
The analysis of expressed sequence tag (EST) datasets offers a rapid and cost-effective approach to elucidate the transcriptome of an organism, but requiring several computational methods for assembly and annotation. ESTExplorer is a comprehensive workflow system for EST data management and analysis. The pipeline uses a ‘distributed control approach’ in which the most appropriate bioinformatics tools are implemented over different dedicated processors. Species-specific repeat masking and conceptual translation are in-built. ESTExplorer accepts a set of ESTs in FASTA format which can be analysed using programs selected by the user. After pre-processing and assembly, the dataset is annotated at the nucleotide and protein levels, following conceptual translation. Users may optionally provide ESTExplorer with assembled contigs for annotation purposes. Functionally annotated contigs/ESTs can be analysed individually. The overall outputs are gene ontologies, protein functional identifications in terms of mapping to protein domains and metabolic pathways. ESTExplorer has been applied successfully to annotate large EST datasets from parasitic nematodes and to identify novel genes as potential targets for parasite intervention. ESTExplorer runs on a Linux cluster and is freely available for the academic community at http://estexplorer.biolinfo.org.
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影响因子：
4
作者：
Nisbet, AJ;Gasser, RB
通讯作者：
Gasser, RB
16,500 个白云杉 EST 簇的生成、注释、分析和数据库集成。
影响因子：
4.4
作者：
Pavy N;Paule C;Parsons L;Crow JA;Morency MJ;Cooke J;Johnson JE;Noumen E;Guillet-Claude C;Butterfield Y;Barber S;Yang G;Liu J;Stott J;Kirkpatrick R;Siddiqui A;Holt R;Marra M;Seguin A;Retzel E;Bousquet J;MacKay J
通讯作者：
MacKay J
影响因子：
5.8
作者：
Paquola, ACM;Nishyiama, MY;Verjovski-Almeida, S
通讯作者：
Verjovski-Almeida, S
影响因子：
2.4
作者：
Cottee, P. A.;Nisbet, A. J.;Gasser, R. B.
通讯作者：
Gasser, R. B.
影响因子：
9.5
作者：
Nagaraj, Shivashankar H.;Gasser, Robin B.;Ranganathan, Shoba
通讯作者：
Ranganathan, Shoba