RNAcon 1.0 – Classification of non-coding RNAs (ncRNA)

RNAcon 1.0

:: DESCRIPTION

RNAcon is a web-server for the prediction and classification of non-coding RNAs. It uses SVM-based model for the discrimination between coding and ncRNAs and RandomForest-based prediction model for the classification of ncRNAs into different classes. The structural information based graph properties were used for the development of prediction model.

::DEVELOPER

RNAcon team

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 RNAcon

:: MORE INFORMATION

Citation

Panwar, B; Arora, A. and Raghava GP (2014)
Prediction and classification of ncRNAs using structural information
BMC Genomics 2014, 15:127

sTarPicker – Global Target Prediction for Bacterial small non-coding RNAs

sTarPicker

:: DESCRIPTION

sTarPicker is a novel method for sRNA target prediction which was based on a two-step model for hybridization between an sRNA and an mRNA target.

::DEVELOPER

Prof. Wuju Li

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 sTarPicker

:: MORE INFORMATION

Citation:

PLoS One. 2011;6(7):e22705. doi: 10.1371/journal.pone.0022705. Epub 2011 Jul 22.
sTarPicker: a method for efficient prediction of bacterial sRNA targets based on a two-step model for hybridization.
Ying X1, Cao Y, Wu J, Liu Q, Cha L, Li W.

ICQ-lincRNA – Identification, Characterization, and Quantification of Long Intergenic Non-Coding RNAs

ICQ-lincRNA

:: DESCRIPTION

ICQ-lincRNA offers an end-to-end solution to identify and annotate expressed lincRNAs in next generation RNA sequencing data

::DEVELOPER

Bioinformatics Program, Division of Biomedical Statistics and Informatics, Mayo Clinic Research

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / VirtualBox

:: DOWNLOAD

 ICQ-lincRNA

:: MORE INFORMATION

StrAl 0.54 – Multiple alignments of non-coding RNAs

StrAl 0.54

:: DESCRIPTION

StrAl is an alignment tool designed to provide multiple alignments of non-coding RNAs following a fast progressive strategy.

::DEVELOPER

Institut für Physikalische Biologie

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 StrAl

:: MORE INFORMATION

Citation

Dalli, D., Wilm, A., Mainz, I., Steger, G. (2006).
StrAl: Progressive alignment of non-coding RNA using base pairing probability vectors in quadratic time.
Bioinformatics (2006) 22 (13): 1593-1599.