ArticleBioinformatics (Oxford, England)2013
Kinannote, a computer program to identify and classify members of the eukaryotic protein kinase superfamily.
Article in Bioinformatics (Oxford, England), 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
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Who cites it
30 citing papers in PubMed.
- Curation of the Fasciola hepatica kinome as a resource for drug target discovery.BMC genomics · 2026Article
- Kinome analysis of Madurella mycetomatis identified kinases in the cell wall integrity pathway as novel potential therapeutic drug targets in eumycetoma caused by Madurella mycetomatis.PLoS neglected tropical diseases · 2025Article
- KiNext: a portable and scalable workflow for the identification and classification of protein kinases.BMC bioinformatics · 2024Article
- The fitness cost of spurious phosphorylation.The EMBO journal · 2024Article
- Identifying potential drug targets in the kinomes of two monogenean species.Helminthologia · 2024Article
- The fitness cost of spurious phosphorylation.bioRxiv : the preprint server for biology · 2023Article
- Article
- Integrated analysis of SR-like protein kinases Sky1 and Sky2 links signaling networks with transcriptional regulation inFrontiers in cellular and infection microbiology · 2023Article
- Genome Analysis of the Broad Host Range NecrotrophFrontiers in plant science · 2022Article
- Update and elucidation ofComputational and structural biotechnology journal · 2022Article
- Deciphering the Crosstalk Mechanisms of Wheat-Stem Rust Pathosystem: Genome-Scale Prediction Unravels Novel Host Targets.Frontiers in plant science · 2022Article
- Article
- High-quality nuclear genome for Sarcoptes scabiei-A critical resource for a neglected parasite.PLoS neglected tropical diseases · 2020Article
- Using phosphoproteomics data to understand cellular signaling: a comprehensive guide to bioinformatics resources.Clinical proteomics · 2020Review
- Evolution of protein kinase substrate recognition at the active site.PLoS biology · 2019Article
- iEKPD 2.0: an update with rich annotations for eukaryotic protein kinases, protein phosphatases and proteins containing phosphoprotein-binding domains.Nucleic acids research · 2019Article
- Unveiling the Kinomes ofComputational and structural biotechnology journal · 2019Article
- Genomic insights into multidrug-resistance, mating and virulence in Candida auris and related emerging species.Nature communications · 2018Article
- Computationally-guided drug repurposing enables the discovery of kinase targets and inhibitors as new schistosomicidal agents.PLoS computational biology · 2018Article
- Kinome Expansion in the Fusarium oxysporum Species Complex Driven by Accessory Chromosomes.mSphere · 2018Article
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
motivationKinases of the eukaryotic protein kinase superfamily are key regulators of most aspects eukaryotic cellular behavior and have provided several drug targets including kinases dysregulated in cancers. The rapid increase in the number of genomic sequences has created an acute need to identify and classify members of this important class of enzymes efficiently and accurately.
resultsKinannote produces a draft kinome and comparative analyses for a predicted proteome using a single line command, and it is currently the only tool that automatically classifies protein kinases using the controlled vocabulary of Hanks and Hunter [Hanks and Hunter (1995)]. A hidden Markov model in combination with a position-specific scoring matrix is used by Kinannote to identify kinases, which are subsequently classified using a BLAST comparison with a local version of KinBase, the curated protein kinase dataset from www.kinase.com. Kinannote was tested on the predicted proteomes from four divergent species. The average sensitivity and precision for kinome retrieval from the test species are 94.4 and 96.8%. The ability of Kinannote to classify identified kinases was also evaluated, and the average sensitivity and precision for full classification of conserved kinases are 71.5 and 82.5%, respectively. Kinannote has had a significant impact on eukaryotic genome annotation, providing protein kinase annotations for 36 genomes made public by the Broad Institute in the period spanning 2009 to the present. AVAILABILITY: Kinannote is freely available at http://sourceforge.net/projects/kinannote.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.