ArticleBMC systems biology2014
NatalieQ: a web server for protein-protein interaction network querying.
Article in BMC systems biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 3 papers.
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Who cites it
3 citing papers in PubMed.
- A review of protein-protein interaction network alignment: From pathway comparison to global alignment.Computational and structural biotechnology journal · 2020Review
- WebNetCoffee: a web-based application to identify functionally conserved proteins from Multiple PPI networks.BMC bioinformatics · 2018Article
- NFPscanner: a webtool for knowledge-based deciphering of biomedical networks.BMC bioinformatics · 2017Article
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Authors and funding
4 authors.
Funding
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Abstract
backgroundMolecular interactions need to be taken into account to adequately model the complex behavior of biological systems. These interactions are captured by various types of biological networks, such as metabolic, gene-regulatory, signal transduction and protein-protein interaction networks. We recently developed Natalie, which computes high-quality network alignments via advanced methods from combinatorial optimization.
resultsHere, we present NatalieQ, a web server for topology-based alignment of a specified query protein-protein interaction network to a selected target network using the Natalie algorithm. By incorporating similarity at both the sequence and the network level, we compute alignments that allow for the transfer of functional annotation as well as for the prediction of missing interactions. We illustrate the capabilities of NatalieQ with a biological case study involving the Wnt signaling pathway.
conclusionsWe show that topology-based network alignment can produce results complementary to those obtained by using sequence similarity alone. We also demonstrate that NatalieQ is able to predict putative interactions. The server is available at: http://www.ibi.vu.nl/programs/natalieq/.
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