Datenintegration, Pathwayanalyse und Modellierung

在DRIP项目的第一阶段，我们开发了一个用于猪基因组分析的数据集成系统（DRIPdb，http://dripdb.molgen.mpg.de）。系统中增加了功能注释的基础资源，如QTL数据库、途径数据库和基因组序列资源。在DRIP研究小组的扩展阶段，我们针对以下具体目标： 继续数据整合：将通过相应的XML格式转换将新的数据类型纳入系统。为了整合不断增长的猪基因组序列信息、新的QTL和eQTL以及新的功能数据，将开发额外的系统接口。 使用AMANUSSUSPathDB对反应网络进行注释：为了生成相关生化反应系统的计算机模拟表示，将识别与候选基因（代谢反应、信号转导途径、基因调控）直接或间接相关的反应，并使用MPIMG提供的通用数据格式（AMANUSSUSPathDB）生成和分析相应的网络。该系统目前可用于人类互动，并将扩展到猪的互动数据。 网络扰动效应的建模：在创建相关反应系统后，将进行广泛的计算建模，以预测网络组件之间的依赖性，作为功能性RNAi实验的计算机模拟。

In the first phase of the DRIP project we have developed a data integration system for porcine genome analysis (DRIPdb, http://dripdb.molgen.mpg.de). Fundamental resources for functional annotation have been added to the system, for example QTL databases, pathway databases and genome sequence resources. In the extension phase of the DRIP research group we target the following specific goals:- Continuation of data integration: New data types will be incorporated into the system by means of respective XML format transformations. Additional system interfaces will be developed in order to integrate the constantly growing porcine genome sequence information, new QTLs and eQTLs and new functional data.- Annotation of reaction networks using the ConsensusPathDB: In order to generate an in silico representation of the relevant biochemical reaction systems, the reactions directly or indirectly associated with the candidate genes (metabolic reactions, signal transduction pathways, gene regulation) will be identified and a respective network will be generated and analysed using a general data format (ConsensusPathDB) available at MPIMG. This system is currently available for human interactions and will be extended to porcine interaction data.- Modelling of effects of network perturbations: After the creation of the relevant reaction system, extensive computational modelling will be performed in order to predict dependencies between network components as an in silico counterpart to the functional RNAi experiments.