GeneExpress: a computer system for description, analysis, and recognition of regulatory sequences in eukaryotic genome.

Proceedings. International Conference on Intelligent Systems for Molecular Biology Pub Date : 1998-01-01

N A Kolchanov, M P Ponomarenko, A E Kel, Kondrakhin YuV, A S Frolov, F A Kolpakov, T N Goryachkovsky, O V Kel, E A Ananko, E V Ignatieva, O A Podkolodnaya, V N Babenko, I L Stepanenko, A G Romashchenko, T I Merkulova, D G Vorobiev, S V Lavryushev, Ponomarenko YuV, A V Kochetov, G B Kolesov, V V Solovyev, L Milanesi, N L Podkolodny, E Wingender, T Heinemeyer

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Abstract

GeneExpress system has been designed to integrate description, analysis, and recognition of eukaryotic regulatory sequences. The system includes 5 basic units: (1) GeneNet contains an object-oriented database for accumulation of data on gene networks and signal transduction pathways and a Java-based viewer that allows an exploration and visualization of the GeneNet information; (2) Transcription Regulation combines the database on transcription regulatory regions of eukaryotic genes (TRRD) and TRRD Viewer; (3) Transcription Factor Binding Site Recognition contains a compilation of transcription factor binding sites (TFBSC) and programs for their analysis and recognition; (4) mRNA Translation is designed for analysis of structural and contextual features of mRNA 5'UTRs and prediction of their translation efficiency; and (5) ACTIVITY is the module for analysis and site activity prediction of a given nucleotide sequence. Integration of the databases in the GeneExpress is based on the Sequence Retrieval System (SRS) created in the European Bioinformatics Institute.

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GeneExpress:一种描述、分析和识别真核生物基因组调控序列的计算机系统。

GeneExpress系统旨在整合真核生物调控序列的描述、分析和识别。该系统包括5个基本单元:(1)GeneNet包含一个面向对象的数据库，用于积累基因网络和信号转导途径的数据，以及一个基于java的查看器，允许对GeneNet信息进行探索和可视化;(2)转录调控结合真核基因转录调控区数据库(TRRD)和TRRD Viewer;(3)转录因子结合位点识别包含转录因子结合位点(TFBSC)的汇编及其分析和识别程序;(4) mRNA翻译旨在分析mRNA 5' utr的结构和上下文特征，并预测其翻译效率;(5)活性是对给定核苷酸序列进行分析和位点活性预测的模块。GeneExpress数据库的整合是基于欧洲生物信息学研究所创建的序列检索系统(SRS)。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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Proceedings. International Conference on Intelligent Systems for Molecular Biology

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