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MnM specifications


Unique identifier OMICS_02935
Name MnM
Alternative name Minimotif Miner
Restrictions to use None
Maintained Yes

Publication for Minimotif Miner

MnM citations


A bioinformatics pipeline to search functional motifs within whole proteome data: a case study of poxviruses

PMCID: 5357487
PMID: 28000080
DOI: 10.1007/s11262-016-1416-9

[…] peats (TPR)). Motifs may contain repeated residue(s) or region(s) (e.g., L-, SR-, AR- or PEST-rich motifs). Number of databases were established to catalogue these motifs, including PROSITE, ELM, and Minimotif Miner (MnM) databases [–]. MnM, MEME Suite, QSLiMFinder, SLiMSearch, 3of5, MotifHound, and DoReMi tools can be used to predict motif(s), pattern(s), or shared consensus within input sequence […]


Shetti, a simple tool to parse, manipulate and search large datasets of sequences

Microb Genom
PMCID: 5320677
PMID: 28348820
DOI: 10.1099/mgen.0.000035

[…] cular phylogenetics tools). Nevertheless, these tools cannot be used to search for data in large datasets. By contrast, the BlockLogo tool is designed for visualizing consensus motifs (), whereas the Minimotif Miner database is designed for finding motifs within a sequence (). These tools do not support browsing, manipulating or searching large-scale omics data. Their shortcomings also include par […]


Discriminative Motif Discovery via Simulated Evolution and Random Under Sampling

PLoS One
PMCID: 3923751
PMID: 24551063
DOI: 10.1371/journal.pone.0087670

[…] motifs. Moreover, DiscMU, in which we incorporate simulated evolution and under-sampling into the discriminative HMM training method, finds the same number of motifs in known targeting motif database Minimotif Miner and InterPro while other methods recover few motifs in InterPro than Minimotif Miner. This may imply that DiscMU is not susceptible to the influence of the difference between databases […]


Achieving High Accuracy Prediction of Minimotifs

PLoS One
PMCID: 3459956
PMID: 23029121
DOI: 10.1371/journal.pone.0045589

[…] tions , . Computational minimotif prediction tools have arisen to perform searches and predict new functions in proteins based upon established functions associated with minimotifs in other proteins. Minimotif Miner (MnM), Eukaryotic Linear Motif (ELM), and ScanSite fulfill these roles , , –. These approaches do have value in their successes; however, the relatively low sequence complexity of mini […]


Reducing False Positive Prediction of Minimotifs with a Genetic Interaction Filter

PLoS One
PMCID: 3293834
PMID: 22403687
DOI: 10.1371/journal.pone.0032630

[…] domains, there is most often a high probability that minimotifs occur in a protein by random chance. Thus false-positive predictions are a general problem in minimotif prediction by websites such as Minimotif Miner, Eukaryotic Linear Motif Server, and ScanSite –.We and other groups have used other types of data to reduce false-positive predictions including protein-protein interactions, molecular […]


The identification of short linear motif mediated interfaces within the human interactome

PMCID: 3315716
PMID: 22328783
DOI: 10.1093/bioinformatics/bts072

[…] .A number of databases have been developed to facilitate our understanding of SLiMs. The Eukaryotic Linear Motif (ELM) resource () contains over 1600 experimentally validated SLiM instances while the Minimotif Miner () database has collected over 880 consensus sequences. These datasets generate insights into the attributes of SLiMs, such as their conservation among homologues and enrichment in dis […]

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MnM institution(s)
Department of Computer Science and Engineering, University of Connecticut, Storrs, CT, USA

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