A predicted protein-protein interaction network of the filamentous fungus Neurospora crassa.
A predicted protein-protein interaction network of the filamentous fungus Neurospora crassa.
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DOI：
10.1039/c1mb05028a
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发表时间：
2011-01
影响因子：
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通讯作者：
Tingting Wang;Fei He;Qianjang Hu;Ziding Zhang
中科院分区：
文献类型：
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作者：
Tingting Wang;Fei He;Qianjang Hu;Ziding Zhang
丝状真菌粗糙脉孢菌是生物钟研究的主要模式生物。N中蛋白质-蛋白质相互作用（PPI）网络（也称为相互作用组）的计算识别。crassa可以为蛋白质的细胞功能提供新的见解。使用两种成熟的生物信息学方法（interlog方法和基于结构域相互作用的方法），我们预测了3006个N中的27，588个PPI。crassa蛋白质。据我们所知，这是N. crassa，但由于不完全的交互和误报，它仍然存在问题。特别是，建立PPI网络提供了线索，以进一步破译昼夜节律的分子机制。例如，我们发现，时钟控制基因（ccgs）更有可能在已建立的PPI网络中充当瓶颈。我们还发现了一个与昼夜节律振荡器相关的重要模块，该模块中的一些功能未知的蛋白可能成为新的振荡器的潜在候选者。最后，所有预测的PPI都被编译到一个用户友好的数据库服务器（NCPI）中，该服务器可以在。
The filamentous fungus Neurospora crassa is a leading model organism for circadian clock studies. Computational identification of a protein-protein interaction (PPI) network (also known as an interactome) in N. crassa can provide new insights into the cellular functions of proteins. Using two well-established bioinformatics methods (the interolog method and the domain interaction-based method), we predicted 27,588 PPIs among 3006 N. crassa proteins. To the best of our knowledge, this is the first identified interactome for N. crassa, although it remains problematic because of incomplete interactions and false positives. In particular, the established PPI network has provided clues to further decipher the molecular mechanism of circadian rhythmicity. For instance, we found that clock-controlled genes (ccgs) are more likely to act as bottlenecks in the established PPI network. We also identified an important module related to circadian oscillators, and some functional unknown proteins in this module may serve as potential candidates for new oscillators. Finally, all predicted PPIs were compiled into a user-friendly database server (NCPI), which is freely available at .