NetworKIN: a resource for exploring cellular phosphorylation networks

@article{linding_networkin_2008, abstract = {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.}, author = {Linding, Rune and Jensen, Lars J. and Pasculescu, Adrian and Olhovsky, Marina and Colwill, Karen and Bork, Peer and Yaffe, Michael B. and Pawson, Tony }, citeulike-article-id = {2713333}, journal = {Nucl. Acids Res.}, keywords = {bioinformatics, network, phosphorylation, prediction, signal, transduction}, pages = {D695--699}, posted-at = {2008-04-24 16:22:01}, priority = {2}, title = {NetworKIN: a resource for exploring cellular phosphorylation networks}, url = {http://nar.oxfordjournals.org/cgi/content/abstract/36/suppl\_1/D695}, volume = {36}, year = {2008} }

TY - JOUR ID - linding_networkin_2008 L3 - citeulike-article-id:2713333 TI - NetworKIN: a resource for exploring cellular phosphorylation networks JF - Nucl. Acids Res. VL - 36 SP - D695 EP - 699 N2 - 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. KW - bioinformatics KW - network KW - phosphorylation KW - prediction KW - signal KW - transduction AU - Linding, Rune AU - Jensen, Lars AU - Pasculescu, Adrian AU - Olhovsky, Marina AU - Colwill, Karen AU - Bork, Peer AU - Yaffe, Michael AU - Pawson, Tony PY - 2008/// UR - http://nar.oxfordjournals.org/cgi/content/abstract/36/suppl_1/D695 ER -