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EnzyMiner specifications


Unique identifier OMICS_09115
Name EnzyMiner
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability No
Maintained No


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Publication for EnzyMiner

EnzyMiner citations


Text Mining Genotype Phenotype Relationships from Biomedical Literature for Database Curation and Precision Medicine

PMCID: 5130168
PMID: 27902695
DOI: 10.1371/journal.pcbi.1005017

[…] fabry disease, it uses regular expression to identify mutation mentions and assumes them to be related to the disease and gene. other early approaches to relationship extraction include, mugex [], enzyminer [], and osiris []. each of these has been reported with limitations and over-specialization []. more recently, hakenberg et al developed an approach to mining a variety of pharmacogenomic […]


Benchmarking infrastructure for mutation text mining

PMCID: 3939821
PMID: 24568600
DOI: 10.1186/2041-1480-5-11

[…] to supporting text fragments. the annotated mutation impact sentences and mutations associated with them support tasks (3) and (4)., one of our seed corpora was based on an extract from the enzyminer [] database of publication abstracts. it was annotated manually and comprised 38 semi-randomly selected full text documents with 176 different singular mutations linked to 48 different […]


Automated extraction and semantic analysis of mutation impacts from the biomedical literature

PMCID: 3395893
PMID: 22759648
DOI: 10.1186/1471-2164-13-S4-S10

[…] the aim of annotating mutations and representing them as instances of an ontology. they further use mstrapviz to read the populated ontology and visualize the annotations on protein structures., enzyminer [] tries to categorize pubmed abstracts based on the impact of a protein level mutation on the stability and activity of a given enzyme. using different classification algorithms, enzyminer […]


Development of a classification scheme for disease related enzyme information

PMCID: 3166944
PMID: 21827651
DOI: 10.1186/1471-2105-12-329

[…] thus applications in this area quickly gain more importance., some disease-related approaches concentrate on a rather precisely defined problem like the extraction of human kinase mutations []. the enzyminer routine [] identifies pubmed abstracts that contain information on a mutation for an enzyme and tries to connect it to a disease. on the enzyminer website […]


Algorithms and semantic infrastructure for mutation impact extraction and grounding

PMCID: 3005927
PMID: 21143808
DOI: 10.1186/1471-2164-11-S4-S24

[…] et al. [] and winnenburg et al. [] ground mutation mentions, as does the mstrap system []., however, little work exists on automatically detecting and extracting mutation impacts. an exception is enzyminer [], which was developed with the aim of automatic classification of pubmed abstracts based on the impact of a protein level mutation on the stability and the activity of a given enzyme. […]

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EnzyMiner institution(s)
Faculty of Engineering and Natural Sciences, Sabanci University, Istanbul, Turkey

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