MatureBayes protocols

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MatureBayes specifications

Information


Unique identifier OMICS_11463
Name MatureBayes
Interface Web user interface
Restrictions to use None
Input data miRNA precursor sequence(s)
Computer skills Basic
Stability Stable
Maintained Yes

Taxon


  • Invertebrates
    • Drosophila melanogaster
  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus
  • Vertebrates
    • Danio rerio

Maintainer


  • person_outline Payiota Poirazi <>

Publication for MatureBayes

MatureBayes in pipeline

2012
PMCID: 3338703
PMID: 22558167
DOI: 10.1371/journal.pone.0035561

[…] web server – (http://diana.cslab.ece.ntua.gr/pathways/) was employed in order to find potential target genes for this novel mirna. the hsa-mir-6165 prediction was also performed by using maturebayes , pmirp and mirz online tools. to search for a putative promoter sequence upstream of (pri-mir-6165) gene, promoter 2.0 prediction server (http://www.cbs.dtu.dk/services/promoter/) […]


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MatureBayes in publications

 (10)
PMCID: 5424272
PMID: 28320202
DOI: 10.14348/molcells.2017.2295

[…] tool (http://evryrna.ibisc.univ-evry.fr/mirnafold/) for the horse genome. next, mature mirnas derived from mer precursor forms (selected for having minimum free energies) were predicted using maturebayes program (http://mirna.imbb.forth.gr/mature-bayes.html). maturebayes is a tool to predict mature mirna from mirna precursor palindromic hairpin structures. mature forms were confirmed […]

PMCID: 4702033
PMID: 26770029
DOI: 10.6026/97320630011550

[…] for repetitive sequence by aligning input genomic sequence against repbase by performing alignment program with cross_match as search engine []. dataset decreases to 246 mirna candidates. finally, maturebayes tool (http://mirna.imbb.forth.gr/maturebayes.html) is used to identify mature mirna sequence in mirna precursor []. out of 246 mirnas one mirna was not able form mature sequence […]

PMCID: 4705652
PMID: 26578605
DOI: 10.1093/nar/gkv1221

[…] bayesmirnafind () is a computational approach that predicts known mirnas based on their secondary structure and sequence for a specific genome as the input. another nbc-based computational tool, maturebayes (), identifies mature mirna candidates based on sequence and secondary structure information of their mirna precursors. the method predicts the start position of experimentally verified, […]

PMCID: 4479233
PMID: 26104160
DOI: 10.1186/s12920-015-0102-4

[…] most likely map within the stem of the predicted structure. the only candidate that fulfilled this criterium was 12375 (fig. ). additionally, as a means to add to this structural prediction, we used maturebayes to find a putative mature sequence within this structure, and the algorithm found one that mapped exactly within our sequenced read (fig. ). a similarity search against 3’utr sequences […]

PMCID: 4603304
PMID: 26011078
DOI: 10.1038/srep09912

[…] precursors from the obtained sequences with a prediction confidence equal to or greater than 70%. subsequently, mature mirna sequences were predicted from the pre-mirna stem-loops. then we used the maturebayes tool to extend the prediction coverage of the mature mirnas. the default conditions were used for the maturebayes tool., human target genes of novel ebov mirnas were predicted using […]


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MatureBayes institution(s)
Computer Science Department, University of Crete, Heraklion, Greece; Institute of Computer Science (ICS), Foundation for Research and Technology-Hellas (FORTH), Heraklion, Greece; Institute of Molecular Biology and Biotechnology (IMBB), Foundation for Research and Technology-Hellas (FORTH), Heraklion, Greece
MatureBayes funding source(s)
This work was funded by the Marie Curie TOK-DEV ASPIRE grant [MTKD-CT-2005- 029791] within the 6th European Community Framework Program and the Marie Curie Outgoing Fellowship [PIOF-GA- 2008-219622] of the European Commission.

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