KinomeXplorer

[…] clusters, have at least one known upstream kinase (supplementary table ). the most prominent kinases in this analysis belong to ck1/2, pka and cdk kinase families., we used networkin 3.0 in kinomexplorer to further predict potential kinase-substrate relationships based on known kinase motifs and protein-protein interactions in the stringv10 database. we focused on the significant […]

[…] (ipa) (qiagen, redwood city, ca, usa), in particular by generating networks of protein–protein relationships. as background, the set of all proteins detected in the experiment was used., the kinomexplorer toolset (; ; ) was applied to predict likely kinases causing the observed phosphorylation changes. two programs were used, netphorest, the atlas of consensus phosphorylation site […]

[…] hr between cr2 and cr3, and the c-terminus (figure ). this suggests that these areas reside in less-ordered states allowing easy access for kinases and phosphatases. using bioinformatic tools like kinomexplorer, scansite or phosphonet, we list which kinases could be implicated in these phosphorylation events ()., by combining the information obtained from our ms experiments and sequencing […]

[…] data, and members of the r.l. laboratory for critical reading of this manuscript, particularly c. santini. we are further indebted to j. kim for assistance with networkin, netphorest, and kinomexplorer and x. robin for assisting in developing and maintaining the rekinect website. we are also indebted to several members of the pawson laboratory, especially a. pasculescu […]

[…] is currently funded by a ludwig fund postdoctoral fellowship. the algorithms and software developed in this work will be released under the creative commons licensing schemes at the websites http://kinomexplorer.science and http://kinspect.science. for further information, see also http://lindinglab.science., this is an open access article under the cc by license […]