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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 citations

 (10)
library_books

Identification and Expression of Equine MER Derived miRNAs

2017
Mol Cells
PMCID: 5424272
PMID: 28320202
DOI: 10.14348/molcells.2017.2295

[…] RNAfold 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 by RT […]

library_books

Computational identification of putative miRNAs and their target genes in pathogenic amoeba Naegleria fowleri

2015
Bioinformation
PMCID: 4702033
PMID: 26770029
DOI: 10.6026/97320630011550

[…] es 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 which red […]

library_books

MatPred: Computational Identification of Mature MicroRNAs within Novel Pre MicroRNAs

2015
Biomed Res Int
PMCID: 4670854
PMID: 26682221
DOI: 10.1155/2015/546763

[…] ethod. MiRRim2 [] is designed for predicting human mature miRNA candidates using a conditional random fields (CRFs) method, based on evolutionary conserved features upstream of Drosha cleavage sites. MatureBayes [] uses a Naive Bayes classifier to identify the location of human and mouse mature miRNAs based on information specific to individual nucleotide. Microprocessor uses a support vector mach […]

library_books

Bioinformatic tools for microRNA dissection

2015
Nucleic Acids Res
PMCID: 4705652
PMID: 26578605
DOI: 10.1093/nar/gkv1221

[…] gram 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, m […]

library_books

Small RNAs in metastatic and non metastatic oral squamous cell carcinoma

2015
BMC Med Genomics
PMCID: 4479233
PMID: 26104160
DOI: 10.1186/s12920-015-0102-4

[…] d mapped to the stem region of the predicted secondary structure. When this was the case we looked for a possible mature sequence within the sequenced read using default parameters from the algorithm MatureBayes []. Mature sequences were then aligned to the 3’ UTR region of human genes obtained from UTRDB [] in order to find putative mRNA targets using the miRanda algorithm []. Different algorithm […]

library_books

Systematic Genome wide Screening and Prediction of microRNAs in EBOV During the 2014 Ebolavirus Outbreak

2015
Sci Rep
PMCID: 4603304
PMID: 26011078
DOI: 10.1038/srep09912

[…] A 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. […]

Citations

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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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