PROmiRNA specifications

Information


Unique identifier OMICS_09586
Name PROmiRNA
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Version 2.0
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Annalisa Marsico <>

Publication for PROmiRNA

PROmiRNA in publications

 (3)
PMCID: 5474535
PMID: 28656148
DOI: 10.1155/2017/7049406

[…] the svm classification model. then they used well-trained complex amosa-svm model to recognize unknown mirna tsss., similar with the above approach, marsico et al. proposed a new approach, named promirna [], based on a semisupervised statistical model. first, the tss clusters of pre-mirnas were generated. second, they normalized the tss clusters by removing the tss clusters overlapping […]

PMCID: 4981266
PMID: 27260304
DOI: 10.1534/genetics.116.187153

[…] states associated to, for example, enhancer regions, promoter regions, insulators, and regions in a repressed state., two sets of putative mirna promoters were predicted. in both cases we used promirna (), a method previously developed in our lab and based on a semisupervised machine-learning approach trained on deep cap analysis gene expression (cage) data and promoter sequence features. […]

PMCID: 5095001
PMID: 27167114
DOI: 10.18632/oncotarget.9202

[…] 19 down-regulated mirnas (table ). next, we examined whether these mirnas were directly regulated by mycn. because the tsss of the mirnas were unclear, we used predicted tsss from mirstart [] and promirna []. therefore, the promoter of a mirna was defined as the genomic region from 10 kb upstream of the predicted tss to the start site of the mirna precursor, and if an mycn binding site fell […]


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PROmiRNA institution(s)
Max Planck Institute for Molecular Genetics, Berlin, Germany; Partner Institute for Computational Biology, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai, China

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