DIANA-mirExTra statistics

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DIANA-mirExTra specifications

Information


Unique identifier OMICS_05978
Name DIANA-mirExTra
Interface Web user interface
Restrictions to use None
Input data A miRNA/RNA-Seq read count data sets.
Programming languages Javascript, PHP
Database management system PostgreSQL
Computer skills Basic
Version 2.0
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus

Maintainers


  • person_outline Artemis G. Hatzigeorgiou
  • person_outline Ioannis S. Vlachos

Publications for DIANA-mirExTra

DIANA-mirExTra citations

 (6)
library_books

Subclinical Detection of Diabetic Cardiomyopathy with MicroRNAs: Challenges and Perspectives

2015
PMCID: 4684873
PMID: 26770988
DOI: 10.1155/2016/6143129

[…] ardiomyocytes where the miRNA-mRNA interaction is correlated with changes in cell phenotype. The process of gene targets identification is accelerated by bioinformatics techniques such as TargetScan, DIANA-mirExTra, PITA, miRNADA, miRDB, and PICTAR that reduce the number of possibilities to test experimentally [–]. In this context a good resource that integrates all these tools is miRWalk database […]

library_books

Bioinformatic tools for microRNA dissection

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

[…] nd polyA sites. It provides graphs of miRNA enrichment associated with up- or down-regulated transcripts and summary tables of selected mRNA targets and their functional annotations by Gene Ontology. DIANA-mirExTra () is a web server that identifies primarily the miRNAs inducing gene deregulation by targeting six nucleotide-long motifs (hexamers) that are overrepresented in the 3′ UTR sequences of […]

library_books

Tissue Elasticity Regulated Tumor Gene Expression: Implication for Diagnostic Biomarkers of Primitive Neuroectodermal Tumor

2015
PLoS One
PMCID: 4361745
PMID: 25774514
DOI: 10.1371/journal.pone.0120336

[…] as then used to determine if predicted miRNA binding sites were greater on genes downregulated on PAA than on PS.A method to identify significant miRNAs based on expression arrays was performed using Diana-MirExTra by comparing miRNA predicted from differentially regulated genes to miRNA predicted for a set of unregulated genes as previously described [,,]. Affymetrix probe IDs were converted into […]

library_books

APP intracellular domain acts as a transcriptional regulator of miR 663 suppressing neuronal differentiation

2015
PMCID: 4669786
PMID: 25695604
DOI: 10.1038/cddis.2015.10

[…] quences of the downregulated transcripts. This consensus motif was complementary to the positions 2–8 from the 5′ end of miR-663, the crucial seed region required for target recognition (). Moreover, DIANA-mirExTra hexamer analysis confirmed that the direct targets of miR-663 were enriched in the 91 downregulated genes (). […]

library_books

miR 24 limits aortic vascular inflammation and murine abdominal aneurysm development

2014
Nat Commun
PMCID: 4217126
PMID: 25358394
DOI: 10.1038/ncomms6214

[…] re identified for all differentially regulated miRNAs (P<0.05 PPE versus saline, Wilcoxon Rank Sum), and the differentially regulated mRNA genes were probed for enrichment of these seed regions using DIANA-mirExTra. Returned values show the probability that hexamers are found more often in the differentially regulated list than in the non-regulated list, as given by Wilcoxon Rank Sum Test. Microar […]

library_books

A New Algorithm for Integrated Analysis of miRNA mRNA Interactions Based on Individual Classification Reveals Insights into Bladder Cancer

2013
PLoS One
PMCID: 3663800
PMID: 23717626
DOI: 10.1371/journal.pone.0064543

[…] induced regulation. miReduce and Sylamer can be used to evaluate the correlation between seed motif enrichments in 3′UTRs of mRNAs for differentially regulated genes in miRNA knockout experiments. DIANA-mirExTra implements similar gene motif evaluation methods as a web service . Creighton et al developed a collection of Excel macros to combine sets of enriched genes with miRNA-mRNA interaction […]

Citations

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DIANA-mirExTra institution(s)
DIANA-Lab, Department of Electrical & Computer Engineering, University of Thessaly, Volos, Greece; Hellenic Pasteur Institute, Athens, Greece; Laboratory for Experimental Surgery and Surgical Research ‘N.S. Christeas’, Medical School of Athens, University of Athens, Athens, Greece; ‘Athena’ Research and Innovation Center, Athens, Greece; Miroculus, San Francisco, CA, USA
DIANA-mirExTra funding source(s)
Supported by the project “NGS-infect” from the Greek General Secretary of Research and Technology and by a Fondation Sante grant.

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