comTAR – Conserved Plant miRNA Target Prediction Tool

comTAR

:: DESCRIPTION

comTAR is a web tool for the prediction of miRNA targets that is mainly based on the conservation of the potential regulation in different species.

::DEVELOPER

IBR (Instituto de Biología Molecular y Celular de Rosario)

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web Browser

:: DOWNLOAD

:: MORE INFORMATION

Citation:

Bioinformatics. 2014 Apr 12. [Epub ahead of print]
comTAR: a web tool for the prediction and characterization of conserved microRNA targets in plants.
Chorostecki U1, Palatnik JF.

mirTarPri 1.0alpha – miRNA Target Prioritization method

mirTarPri 1.0alpha

:: DESCRIPTION

mirTarPri is a web toolkit for prioritising candidate mirRNA targets in the context of functional genomic data.

::DEVELOPER

mirTarPri team

:: SCREENSHOTS

n/a

:: REQUIREMENTS

Web Browser

:: DOWNLOAD

:: MORE INFORMATION

Citation:

PLoS One. 2013;8(1):e53685. doi: 10.1371/journal.pone.0053685. Epub 2013 Jan 9.
mirTarPri: improved prioritization of microRNA targets through incorporation of functional genomics data.
Wang P1, Ning S, Wang Q, Li R, Ye J, Zhao Z, Li Y, Huang T, Li X.

MTide – Identification of miRNA-target Interaction in Plants

MTide

:: DESCRIPTION

MTide is an integrated tool for the identification of miRNA-target interaction in plants. The core algorithm consists of a modified miRDeep2 and a modified CleaveLand4.

::DEVELOPER

Ming Chen’s Bioinformatics Group, Zhejiang University.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Linux
Perl

:: DOWNLOAD

MTide

:: MORE INFORMATION

Citation

MTide: an integrated tool for the identification of miRNA-target interaction in plants.
Zhang Z, Jiang L, Wang J, Chen M.
Bioinformatics. 2014 Sep 24. pii: btu633.

mBISON – Find Enrichment of miRNA Targets on lists of Genes

mBISON

:: DESCRIPTION

mBISON (Analysis on miRNA binding site over-representation) finds over-represented miRNA targets in a gene list you provide.

::DEVELOPER

Computational Biology and Data Mining (CBDM) Group

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web Browser

:: DOWNLOAD

:: MORE INFORMATION

Citation

BMC Res Notes. 2015 Apr 16;8:157. doi: 10.1186/s13104-015-1118-8.
mBISON: Finding miRNA target over-representation in gene lists from ChIP-sequencing data.
Gebhardt ML, Mer AS, Andrade-Navarro MA.

comPARE – PARE Validated miRNA Targets

comPARE

:: DESCRIPTION

comPARE is a web resource for plant miRNA target analysis.

::DEVELOPER

the Meyers lab at the University of Delaware.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

Web browser

:: DOWNLOAD

:: MORE INFORMATION

Citation

Nucleic Acids Res. 2014 Oct;42(18):e139. doi: 10.1093/nar/gku693. Epub 2014 Aug 12.
sPARTA: a parallelized pipeline for integrated analysis of plant miRNA and cleaved mRNA data sets, including new miRNA target-identification software.
Kakrana A, Hammond R, Patel P, Nakano M, Meyers BC