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mentha specifications

Information


Unique identifier OMICS_05022
Name mentha
Interface Web user interface
Restrictions to use None
Input data Some UniProt IDs.
Computer skills Basic
Stability Stable
Maintained Yes

Taxon


  • Bacteria
    • Escherichia coli
  • Invertebrates
    • Caenorhabditis elegans
    • Drosophila melanogaster
  • Plants and Fungi
    • Arabidopsis thaliana
    • Saccharomyces cerevisiae
  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus
    • Rattus norvegicus

Maintainer


Additional information


http://mentha.uniroma2.it/about.php

Information


Unique identifier OMICS_05022
Name mentha
Software type Application/Script
Interface Command line interface
Restrictions to use None
Input data Some UniProt IDs.
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Taxon


  • Bacteria
    • Escherichia coli
  • Invertebrates
    • Caenorhabditis elegans
    • Drosophila melanogaster
  • Plants and Fungi
    • Arabidopsis thaliana
    • Saccharomyces cerevisiae
  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus
    • Rattus norvegicus

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Maintainer


Additional information


http://mentha.uniroma2.it/about.php

Publication for mentha

library_books

Mentha: a resource for browsing integrated protein-interaction networks.

2013 Nat Methods
PMID: 23900247

mentha in pipeline

2015
PMCID: 4464023
PMID: 26050708
DOI: 10.1186/1752-0509-9-S3-S3

[…] the number of proteins in the network. we set (m = 4714 and n = 1890)., the input used in protnet is a list of binary interactions sorted by relevance score []. yeast_net is a network extracted from mentha []. the complete list of interactions was filtered in order to minimize false-positives and use only interactions described by more than one method. the resulting network is composed of 1890 […]


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mentha in publications

 (19)
PMCID: 5928037
PMID: 29712973
DOI: 10.1038/s41598-018-25113-4

[…] each amino acid,. an average per-amino acid conservation was used to quantify conservation for each proteins encoded by differentially expressed genes. we collected the mouse ppi network from the mentha resource that integrates data from five manually curated source databases. with that integrative approach, the mentha resource offers arguably the most complete currently available ppi network […]

PMCID: 5875410
PMID: 29618931
DOI: 10.2147/OTT.S150565

[…] the biocloud platform, the degs were performed with functional and pathway enrichment analyses. the p-value <0.01 was set as the cutoff criterion., the intersection of the ppi pairs included in mentha (http://mentha.uniroma2.it/about.php), biogrid (https://wiki.thebiogrid.org/), and hprd (http://www.hprd.org/) databases was taken as background, and then the degs were mapped […]

PMCID: 5765210
PMID: 29270911
DOI: 10.1007/s10522-017-9741-5

[…] interactions or co-complex associations of the encoded proteins, complemented by different types of functional relationships. in particular, the interaction data were retrieved from the resources mentha, bioplex, and string. human release 2015.11.27 of mentha was used as an integrated interaction network that combines experimentally determined and literature-curated physical protein […]

PMCID: 5723071
PMID: 29221435
DOI: 10.1186/s12881-017-0503-7

[…] with pkp2 with a confidence of at least 0.7 were selected. (ii) the two gene products interact functionally. pkp2 interactors were downloaded from the string database [] version 10 and the mentha database [] version 2016–08-07. string interactions were restricted to those with a confidence of at least 0.7. the union of pkp2 interactors from the two databases was selected. (iii) the two […]

PMCID: 5780095
PMID: 29138843
DOI: 10.3892/mmr.2017.8045

[…] is an open access database that contains information on genetic and protein interactions obtained from primary biomedical literature for numerous model organisms and humans (). mentha (http://mentha.uniroma2.it/about.php) is a resource used to browse integrated protein-interaction networks (). furthermore, the human protein reference database (hprd; release no. 9; […]


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mentha institution(s)
Department of Biology, University of Rome Tor Vergata, Rome, Italy; Fondazione Santa Lucia Istituto di Ricovero e Cura a Carattere Scientifico (IRCCS), Rome, Italy
mentha funding source(s)
Supported by the European Union Framework project 7 “Affinomics” grant and the “Oncodiet” grant from the Fondo per gli Investimenti della Ricerca di Base (FIRB) project.

mentha review

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ostrokach

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Web
Great source of protein-protein interaction data mapped to UniProt protein names.