Magia protocols

View Magia computational protocol

Magia statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Gene regulatory network inference chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

Magia specifications

Information


Unique identifier OMICS_05979
Name Magia
Alternative name MAGIA2
Interface Web user interface
Restrictions to use None
Input data Some miRNA and gene (or transcript) expression data.
Input format TSV
Output data Some interactive images and dynamic tables.
Output format TSV
Computer skills Basic
Version 2.0
Stability Stable
Maintained No

Taxon


  • Invertebrates
    • Drosophila melanogaster
  • Primates
    • Homo sapiens
  • Rodents
    • Mus musculus
    • Rattus norvegicus

Maintainers


This tool is not available anymore.

Additional information


http://gencomp.bio.unipd.it/magia2/documentation/?sid=b06db08d8c69e448314c7967ef1c014a

Publications for Magia

Magia in pipelines

 (4)
2018
PMCID: 5776778
PMID: 29357938
DOI: 10.1186/s12958-017-0319-5

[…] each sample. degseq (v1.18.0) [] was used to analyze differentially expressed genes (degs) with parameters of fdr < 0.05 and |log2fc| ≥ 1., the mirna and mrna expression profiles were analyzed by magia2 (http://gencomp.bio.unipd.it/magia2/) to identify mirna-tf-gene binary interactions and circuits []. the mirna-target interactions were predicted by the targetscan database [] with a z-score ≥  […]

2017
PMCID: 5295029
PMID: 28098823
DOI: 10.3390/genes8010035

[…] profile of a given mirna is expected to be inversely correlated with its mrna target if the mirna acts on mrna stability. data from mirna and gene expression identified by rcca were analyzed by magia2 web-tool [] to build mixed mirna-gene expression networks. magia2 was run on the expression data for the top 75% of genes with greatest variation in expression among samples. three target […]

2016
PMCID: 5120312
PMID: 27876829
DOI: 10.1038/srep36904

[…] profiles in 10 samples each from cases and controls. the differentially expressed mrna and mirna profiles of these 20 samples were integrated without further filtering on a per-sample basis using magia, where we used spearman correlation and the mean diana microt target score to map the mirnas to potential targets. to test the statistical significance of the overall mirna microarray results, […]

2012
PMCID: 3276573
PMID: 22347458
DOI: 10.1371/journal.pone.0031293

[…] it used mirnas sequences downloaded from mirbase version 14. to identify the most likely targets, we have integrated mrna and mirna expression data, obtained on the same biological samples, using magia web tool . we used a non-parametric index (spearman correlation coefficient), the most indicated statistical coefficient for a small number of measures, to estimate the degree […]


To access a full list of citations, you will need to upgrade to our premium service.

Magia in publications

 (40)
PMCID: 5911478
PMID: 29713312
DOI: 10.3389/fendo.2018.00158

[…] of dge (edge) (). only de mirnas or genes with p-value <0.05 and log2-fold change ≤−1.0 or ≥1.0 were subjected to further analysis., integrated mirna and mrna analysis were performed using magia2 (). log2 normalized reads from the significant de mirnas and mrnas were uploaded into magia2 and positive and negative correlation analyses between mirnas, transcription factors, and target […]

PMCID: 5461482
PMID: 28569742
DOI: 10.1038/ncomms15529

[…] (2017)., publisher's note: springer nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations., this work was supported by infn (magia-advanced experiment) and miur (progetto premiale atom interferometry and prin-2015). č.b. is supported by the john templeton foundation, the austrian science fund (fwf) through the special […]

PMCID: 5295029
PMID: 28098823
DOI: 10.3390/genes8010035

[…] notch, immune/inflammatory response, epithelial–mesenchymal transition (emt), and angiogenesis pathways. regularized canonical correlation analysis of spls-da mirna and gene data combined with the magia2 web-tool highlighted 16 mirnas and 84 genes that were interconnected in a total of 245 interactions. after feature selection by a smoothed t-statistic support vector machine, we identified […]

PMCID: 5187794
PMID: 27916805
DOI: 10.3390/ijms17121994

[…] microrna.org, mirdb, rna22, targetminer, pictar-vertebrates) for in silico studies. other in silico tools are progressively becoming available for functional mirna analysis. for example, magia83 (mirna and genes integrated analysis) (http://gencomp.bio.unipd.it/magia/start/) integrates expression profiles of mirna and mrna to investigate more deeply into biological networks […]

PMCID: 5120312
PMID: 27876829
DOI: 10.1038/srep36904

[…] mrnas differentially expressed between severely diseased and control aortic valve tissue (adjusted p-value <0.05), 3292 of which were recognized by the mirna/mrna integrated analysis software magia. when paired with differentially expressed mirna levels from the same sample, magia identified 3707 statistically significant mirna-mrna interactions, higher than any random permutation […]


To access a full list of publications, you will need to upgrade to our premium service.

Magia institution(s)
Department of Biology, University of Padova, Padova, Italy; Department of Statistical Science, University of Padova, Padova, Italy; Department of Comparative Biomedicine and Food Sciences, University of Padova, Padova, Italy

Magia reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review Magia