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KinMutBase specifications

Information


Unique identifier OMICS_32128
Name KinMutBase
Restrictions to use None
Community driven No
Data access Browse
User data submission Allowed
Version 4.0
Maintained Yes

Maintainer


  • person_outline Mauno Vihinen

Publication for KinMutBase

KinMutBase citations

 (5)
library_books

Mutation extraction tools can be combined for robust recognition of genetic variants in the literature

2014
F1000Res
PMCID: 4176422
PMID: 25285203
DOI: 10.5256/f1000research.3422.r3233

[…] ng the curated information from variants databases. Krallinger et al. extracteded mutations from literature for the kinase domain from abstracts and full text showing different levels of coverage of KinMutBase , the Swissprot Variant database , SAAPdb and the COSMIC database , for which only 6% of the mutations were recovered. Schenck et al. worked on a small set of articles curated in COSMIC t […]

library_books

Benchmarking infrastructure for mutation text mining

2014
J Biomed Semantics
PMCID: 3939821
PMID: 24568600
DOI: 10.1186/2041-1480-5-11

[…] We retrieved 201 documents annotated with singular amino acid substitutions grounded to proteins, from the KinMutBase [] database. We additionally curated the selection by running MutationFinder [], which is a reliable tool for this purpose due to its very high recall, and comparing the results with the an […]

library_books

Literature mining of genetic variants for curation: quantifying the importance of supplementary material

2014
PMCID: 3920087
PMID: 24520105
DOI: 10.1093/database/bau003

[…] les and then assess overlap of those mutations with curated resources. Using both abstracts and full texts, they showed that their approach was able to recover ∼50% of the mutations in two databases, KinMutBase [] and the Swissprot Variant database [], but only 20% of the mutations in SAAPdb [] and a small fraction (6%) of the mutations in the COSMIC database [], at the time of their study in Marc […]

call_split

Sequence and Structure Signatures of Cancer Mutation Hotspots in Protein Kinases

2009
PLoS One
PMCID: 2759519
PMID: 19834613
DOI: 10.1371/journal.pone.0007485
call_split See protocol

[…] rom NCBI –, COSMIC , SwissProt –, and Protein Data Bank (PDB) . We have also integrated non-redundant information about genetic variations in protein kinases from more specialized resources PupaSNP , KinMutBase , , BTKbase , HGMD , , PKR , and MoKCa .Main entries in CKMD were indexed as genes and each gene entry contained many sub-entries of related information associated with that gene. We opted […]

library_books

Extraction of human kinase mutations from literature, databases and genotyping studies

2009
BMC Bioinformatics
PMCID: 2745582
PMID: 19758464
DOI: 10.1186/1471-2105-10-S8-S1

[…] ide din the future.The experiment shows that for 23% of the mutations there was a positive confirmed record in at least one of the analyzed knowledgebases (SwissProt [], COSMIC [], Greenman/Wood [,], KinMutBase [], SAAPdb []), being consistent with the results previously shown for the automatic extraction pipeline. In addition, and an important added value provided by our system, 41% of the result […]


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KinMutBase institution(s)
Institute of Medical Technology, University of Tampere, Tampere, Finland; Department of Biosciences, Division of Biochemistry, University of Helsinki, Helsinki, Finland; Research Unit, Tampere University Hospital, Tampere, Finland

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