The DOI matches its Crossref record; 1 of the 1 references it cites were found in a registry or an index.
NetworKIN: a resource for exploring cellular phosphorylation networks
Open accessAbstract
Protein kinases control cellular responses by phosphorylating specific substrates. Recent proteome-wide mapping of protein phosphorylation sites by mass spectrometry has discovered thousands of in vivo sites. Systematically assigning all 518 human kinases to all these sites is a challenging problem. The NetworKIN database (http://networkin.info) integrates consensus substrate motifs with context modelling for improved prediction of cellular kinase-substrate relations. Based on the latest human phosphoproteome from the Phospho.ELM and PhosphoSite databases, the resource offers insight into phosphorylation-modulated interaction networks. Here, we describe how NetworKIN can be used for both global and targeted molecular studies. Via the web interface users can query the database of precomputed kinase-substrate relations or obtain predictions on novel phosphoproteins. The database currently contains a predicted phosphorylation network with 20,224 site-specific interactions involving 3978 phosphoproteins and 73 human kinases from 20 families.
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Cites
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Hoffman, N. J., Parker, B. L., Chaudhuri, R., Fisher-Wellman, K. H., Kleinert, M., Humphrey, S. J., Yang, P., Holliday, M., Trefely, S., Fazakerley, D. J., et al. (2015) · Cell Metabolism · doi:10.1016/j.cmet.2015.09.001 · Cited by 426
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Kauko, O., O’Connor, C. M., Kulesskiy, E., Sangodkar, J., Aakula, A., Izadmehr, S., Yetukuri, L., Yadav, B., Padzik, A., Laajala, T. D., et al. (2018) · Science Translational Medicine · doi:10.1126/scitranslmed.aaq1093 · Cited by 149
McDermott, J. E., Arshad, O. A., Petyuk, V. A., Fu, Y., Gritsenko, M. A., Clauss, T. R., Moore, R. J., Schepmoes, A. A., Zhao, R., Monroe, M. E., et al. (2020) · Cell Reports Medicine · doi:10.1016/j.xcrm.2020.100004 · Cited by 97
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“Enrichment of canonical signaling pathways and kinase targets between different clusters was additionally evaluated by Ingenuity Pathway Analysis software and the NetworKIN kinase target prediction tool (50).”
MethodOsinalde, N., Mitxelena, J., Sánchez-Quiles, V., Akimov, V., Aloria, K., Arizmendi, J. M., Zubiaga, A. M., Blagoev, B., & Kratchmarova, I. (2016) · Molecular & Cellular Proteomics · doi:10.1074/mcp.m115.057158 · Cited by 48
Rebak, A. S., Hendriks, I. A., Elsborg, J. D., Buch-Larsen, S. C., Nielsen, C. H., Terslev, L., Kirsch, R., Damgaard, D., Doncheva, N. T., Lennartsson, C., et al. (2024) · Nature Structural & Molecular Biology · doi:10.1038/s41594-024-01214-9 · Cited by 45
Self-citationYarbro, J. M., Han, X., Dasgupta, A., Yang, K., Liu, D., Shrestha, H. K., Zaman, M., Wang, Z., Yu, K., Lee, D. G., et al. (2025) · Nature Communications · doi:10.1038/s41467-025-56853-3 · Cited by 41
Crowgey, E. L., Matlock, A., Venkatraman, V., Fert-Bober, J., & Van Eyk, J. E. (2017) · Methods in Molecular Biology · doi:10.1007/978-1-4939-6783-4_19 · Cited by 9
Metadata
- Authors
- Linding, R., Jensen, L. J., Pasculescu, A., Olhovsky, M., Colwill, K., Bork, P., Yaffe, M. B., & Pawson, T.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2007-12-23
- Volume
- 36
- Issue
- Database
- Pages
- D695-D699
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- OpenAlex
- W2031028006
- Cited by
- 393
- References
- 1
- FWCI
- 6.23
- Type
- journal article
- Language
- en
- Open access
- gold
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