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Unique identifier OMICS_05961
Name Kinomer
Restrictions to use None
Maintained Yes

Publication for Kinomer

Kinomer citations

 (7)
library_books

Systematic functional analysis of kinases in the fungal pathogen Cryptococcus neoformans

2016
Nat Commun
PMCID: 5052723
PMID: 27677328
DOI: 10.1038/ncomms12766

[…] sequence profiles of SUPERFAMILY (version 1.73; ref. ). A total of 64 family identifiers belonging to 38 superfamilies were used to predict putative kinases (). In addition, the sequence profiles of Kinomer (version 1.0; refs , ) and the Microbial Kinome were used to supplement the kinase prediction. Information from genome annotation of C. neoformans var. grubii H99 and protein domain prediction […]

library_books

Defining the Schistosoma haematobium kinome enables the prediction of essential kinases as anti schistosome drug targets

2015
Sci Rep
PMCID: 4669435
PMID: 26635209
DOI: 10.1038/srep17759

[…] comparative analyses of parasite and host kinases into this pipeline.In most previous studies, the identification of kinase sequences has relied on searches using HMMs from databases such as Pfam or Kinomer, or position-specific scoring matrices (PSSMs). However, the combination of several of these methods can achieve enhanced predictions and classification compared with a single method. The prog […]

library_books

Genome Wide Identification and Comprehensive Analyses of the Kinomes in Four Pathogenic Microsporidia Species

2014
PLoS One
PMCID: 4280135
PMID: 25549259
DOI: 10.1371/journal.pone.0115890

[…] Pfam (http://pfam.sanger.ac.uk/family/PF00069). Additionally, two protein kinase domain HMM (Hidden Markov Model) profiles were downloaded from the Pfam (http://pfam.sanger.ac.uk/family/PF00069) and Kinomer (http://www.compbio.dundee.ac.uk/kinomer/index.html) databases. Combined kinase domain HMMs were generated using the Hmmbuild and Cat programs implemented in HMMER 3.1 . The ePKs and aPKs in t […]

library_books

Genome of the Avirulent Human Infective Trypanosome—Trypanosoma rangeli

2014
PLoS Negl Trop Dis
PMCID: 4169256
PMID: 25233456
DOI: 10.1371/journal.pntd.0003176

[…] All protein kinase and phosphatidylinositol kinase sequences were selected and manually curated and re-annotated using the following software: Kinomer v. 1.0 web server , Kinbase (http://www.kinase.com/kinbase/), SMART (http://smart.embl-heidelberg.de/), Interproscan (http://www.ebi.ac.uk/Tools/pfa/iprscan/) and Motifscan (http://myhits.isb- […]

library_books

Genome of the human hookworm Necator americanus

2014
Nat Genet
PMCID: 3978129
PMID: 24441737
DOI: 10.1038/ng.2875

[…] N. americanus genes were screened against the collection of kinase domain models in the Kinomer and custom score thresholds applied for each kinase group and then adjusted until an hmmpfam search came as close as possible to identifying known C. elegans kinases. Those same cutoffs were t […]

library_books

Efficient and Interpretable Prediction of Protein Functional Classes by Correspondence Analysis and Compact Set Relations

2013
PLoS One
PMCID: 3795737
PMID: 24146760
DOI: 10.1371/journal.pone.0075542

[…] ase_domain.fasta) and it contains 409 protein sequences classified into the eight families detailed in . To the best of our knowledge, we compare our results to the most recent classification method, Kinomer . […]

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Kinomer institution(s)
College of Life Sciences, University of Dundee, Dow Street, Dundee, Scotland, UK

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