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MoD Tools specifications

Information


Unique identifier OMICS_24747
Name MoD Tools
Alternative name Motif Discovery Tools
Interface Web user interface
Restrictions to use None
Input data A sequence.
Computer skills Basic
Maintained No

Additional information


http://www.beacon.unimi.it/modtools/

Publication for Motif Discovery Tools

MoD Tools citations

 (3)
library_books

Phylogeny Disambiguates the Evolution of Heat Shock cis Regulatory Elements in Drosophila

2010
PLoS One
PMCID: 2871787
PMID: 20498853
DOI: 10.1371/journal.pone.0010669

[…] d D. yakuba for promoter region delineation.The defined promoter region upstream of the aligned TSS in all promoters was used as the search region for HSEs. First, we employed a motif finder, part of Mod Tools , to locate potential HSEs by searching for the 8-nucleotide sequence TTCNNGAA, allowing for a maximum of 4 mutations and screening for 8 bp sequences with a matrix score of at least 70. Thi […]

library_books

Identification of phylogenetically conserved sequence motifs in microRNA 5' flanking sites from C. elegans and C. briggsae

2008
BMC Mol Biol
PMCID: 2613404
PMID: 19036124
DOI: 10.1186/1471-2199-9-105

[…] with ClustalW [], (Additional file ).The most significant motifs were located from the putative miRNA regulatory region with Visualize tool of POXO tool series [], or Weeder Motif Locator included in MoD Tools [], allowing two mismatches to the consensus sequence, and the position weight matrices were calculated from these results. The motif logos were created with WebLogo [] and Transfac and Jasp […]

library_books

GMODWeb: a web framework for the generic model organism database

2008
Genome Biol
PMCID: 2481422
PMID: 18570664
DOI: 10.1186/gb-2008-9-6-r102

[…] ta from a variety of sources in a common system, such as Atlas [], BioWarehouse [], BIOZON [], FlyMine [], or EnsMart [].In many ways GMODWeb was designed as a bridge between these different types of MOD tools by providing a generic framework for both browsing and searching model organism data. However, there are several key differences with existing tools. GMODWeb is based on a development framew […]

Citations

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MoD Tools institution(s)
Dipartimento di Scienze Biomolecolari e Biotecnologie, University of Milano, Milano, Italy; Dipartimento di Informatica, Sistemistica e Comunicazione, University of Milano-Bicocca, Milano, Italy; Dipartimento di Biochimica e Biologia Molecolare, University of Bari, Bari, Italy; Istituto Tecnologie Biomediche-Consiglio Nazionale delle Ricerche, Bari, Italy

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