EvoMining statistics

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Citations per year

Number of citations per year for the bioinformatics software tool EvoMining

Tool usage distribution map

This map represents all the scientific publications referring to EvoMining per scientific context
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EvoMining specifications


Unique identifier OMICS_17095
Name EvoMining
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability No
Maintained No


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Publications for EvoMining

EvoMining citations


Expanding Primary Metabolism Helps Generate the Metabolic Robustness To Facilitate Antibiotic Biosynthesis in Streptomyces

PMCID: 5801464
PMID: 29437921
DOI: 10.1128/mBio.02283-17

[…] 5772963.v1). All genomes were retrieved from GenBank, reannotated with RAST () to ensure consistency of annotation across the database, and then analyzed in a bespoke bioinformatics pipeline based on EvoMining (, ) (see Fig. S1 and Table S1 at https://doi.org/10.6084/m9.figshare.5772963.v1). It was hypothesized that, if precursor-supplying pathways are a contributing factor to the adaptive respons […]


Nonribosomal Peptides from Marine Microbes and Their Antimicrobial and Anticancer Potential

Front Pharmacol
PMCID: 5702503
PMID: 29209209
DOI: 10.3389/fphar.2017.00828

[…] nly focuses on the identification of new BGC types by applying three approaches; namely pattern-based mining, phylogenetic mining and comparative genomic mining. These further include Cluster Finder, EvoMining, and Algorithim, respectively. Tools for identification of BGCs with respect to metagenomes include PCR-based sequence-tag and the shotgun assembly approach. The sequence-tag approach identi […]


Current Status and Future Prospects of Marine Natural Products (MNPs) as Antimicrobials

Mar Drugs
PMCID: 5618411
PMID: 28846659
DOI: 10.3390/md15090272

[…] ized and post-translationally modified peptides (RiPPs) and terpene products and has been expanded from BGC mining in bacteria and fungi to BGC mining in plants []. Another recently developed tool is EvoMining, which integrates evolutionary concepts related to the emergence of natural product biosynthesis into genome mining. It is a newly developed phylogenomics approach toward BGC analysis and ha […]


Antibiotic drug discovery

PMCID: 4993170
PMID: 27470984
DOI: 10.1111/1751-7915.12388

[…] bacterial genomes and detected about 30 000 putative biosynthetic gene clusters. Another method that addresses the problem of finding novel pathways is based on evolutionary distances and was called EvoMining (Cruz‐Morales et al., ). EvoMining is based on the assumption that most enzymes used in secondary metabolism have been duplicated and evolved from primary metabolism (Cruz‐Morales et al., ). […]


Increasing Metagenomic Resolution of Microbiome Interactions Through Functional Phylogenomics and Bacterial Sub Communities

Front Genet
PMCID: 4748306
PMID: 26904093
DOI: 10.3389/fgene.2016.00004

[…] es et al. developed a functional phylogenomics platform to identify expanded, repurposed enzyme families, which have been recruited from central metabolism into the context of specialized metabolism. EvoMining uses single-gene topologies to reveal characteristic phylogenetic signatures of rapid evolution that can be further analyzed in detail with the construction of hidden Markov models (HMM) pro […]


The secondary metabolite bioinformatics portal: Computational tools to facilitate synthetic biology of secondary metabolite production

PMCID: 5640684
PMID: 29062930
DOI: 10.1016/j.synbio.2015.12.002

[…] thways that use a different biochemistry and enzymes. To avoid this limitation, also rule-independent methods, which are less biased, have been developed, for example implemented in ClusterFinder and EvoMining (see below for details on how they work). These tools use machine learning-based approaches or automated phylogenomics analyses to make their predictions. For fungi, algorithms that evaluate […]

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EvoMining institution(s)
Evolution of Metabolic Diversity Laboratory, Unidad de Genómica Avanzada (Langebio), Cinvestav-IPN, Irapuato, México
EvoMining funding source(s)
Supported by Conacyt, Mexico (PhD scholarship No. 204482 and grants No. CB2017 285746 and 2017 051TAMU), by SICES of the State of Guanajuato, Mexico, and by a Newton Advanced Fellowship-Royal Society (NAF/R2/180631).

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