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wKinMut: An integrated tool for the analysis and interpretation of mutations in human protein kinases

Jose MG Izarzugaza, Miguel Vazquez, Angela del Pozo, Alfonso Valencia
2013 BMC Bioinformatics  
Acknowledgements The authors thank the members of the Structural Biology and Biocomputing Programme (CNIO), especially A. Rausell, D. Juan, I. Ezkurdia and T.  ...  Pons, for interesting discussion and comments on this manuscript.  ...  Implementation wKinMut represents the first resource to provide an integrated tool for the analysis and interpretation of the consequences of mutations in the protein kinase superfamily.  ... 
doi:10.1186/1471-2105-14-345 pmid:24289158 pmcid:PMC3879071 fatcat:wblb72yq5nelnlseujbysgukgy

wKinMut-2: Identification and Interpretation of Pathogenic Variants in Human Protein Kinases

Miguel Vazquez, Tirso Pons, Søren Brunak, Alfonso Valencia, Jose M.G. Izarzugaza
2015 Human Mutation  
interpretation of the consequences 32 of human protein kinase variation.  ...  However, this heterogeneous information is often scattered across 30 different sources, which makes the integrative analysis complex and laborious. 31 wKinMut-2 constitutes a solution to facilitate the  ...  of wKinMut-2 help to identify and interpret 570 pathogenic variants in human protein kinases. 571 572 TABLES 573 function in Weka.  ... 
doi:10.1002/humu.22914 pmid:26443060 fatcat:is4f4opuencpraavflxspgctuy

Interpretation of the Consequences of Mutations in Protein Kinases: Combined Use of Bioinformatics and Text Mining

Jose M. G. Izarzugaza, Martin Krallinger, Alfonso Valencia
2012 Frontiers in Physiology  
Finally, we will discuss how text mining approaches constitute a powerful tool for the interpretation of the consequences of mutations in the context of disease genome analysis with particular focus on  ...  In this article, we will review the possibilities and limitations of current computational methods for the prediction of the pathogenicity of mutations in the protein kinase superfamily.  ...  wKinMut 2 to help in the interpretation of mutations in the protein kinase superfamily.  ... 
doi:10.3389/fphys.2012.00323 pmid:23055974 pmcid:PMC3449330 fatcat:i2qqkuh4nfde3pxeknjbvgpfpe

Getting personalized cancer genome analysis into the clinic: the challenges in bioinformatics

Alfonso Valencia, Manuel Hidalgo
2012 Genome Medicine  
Acknowledgements The work in the group of AV related to this review is supported by grants from the ENCODE Project (U54 HG0004555), eTOX (Grant 115002, Innovative Medicines Initiative) and Consolider E-Science  ...  (CSD2007-00050), the Instituto de Salud Carlos III COMBIOMED (RD07/0067/0014) and the Spanish Ministry of Science and Innovation (BIO2007-66855).  ...  The identification of binding sites and active sites in proteins is therefore an important aid to interpreting the effects of mutations.  ... 
doi:10.1186/gm362 pmid:22839973 pmcid:PMC3580417 fatcat:2t5baj5uovdw7p72ohvorkufdy