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Small RNAs – The Big Players in Developing Salt-Resistant Plants

TABLE 9.2 Useful Tools for microRNA Prediction in Plants

Program

Website

References

miRAlign

http://bioinfo.au.tsinghua.edu.cn/miralign/

Wang et al. (2005)

miRFinder

http://sundarlab.ucdavis.edu/mirna/

Huang et al. (2007)

Mireval

http://tagc.univ-mrs.fr/mireval/

Ritchie et al. (2008)

miRNEST

http://lemur.amu.edu.pl/share/php/mirnest/ Szcześniak et al. (2012)

home.php

mirExplorer

http://biocenter.sysu.edu.cn/mir/

Guan et al. (2011)

MiRPara

http://www.whiov.ac.cn/bioinformatics/

Wu et al. (2011)

mirpara

findMiRNA

http://www.bioinformatics.org/mirfinder/

Adai et al. (2005)

Micro-harvester

http://ab.inf.uni-tuebingen.de/brisbane/tb/

Dezulian et al. (2006)

index.php

MicroPC

http://www.biotec.or.th/isl/micropc

Mhuantong & Wichada-

kul (2009)

SplamiR

http://www.uni-jena.de/SplamiR.html

Thieme et al. (2011)

miRTour

http://bio2server.bioinfo.uni-plovdiv.bg/

Milev et al. (2011)

miRTour/

TABLE 9.3 Useful Tools for microRNA Target Prediction in Plants

Program

Website

References

MicroInspector

http://mirna.imbb.forth.gr/microinspector/ Rusinov et al. (2005)

miRBase

http://www.mirbase.org/

Griffiths-Jones et al. (2006)

miTarget

http://cbit.snu.ac.kr/~miTarget/

Kim et al. (2006)

TarBase

http://www.diana.pcbi.upenn.edu/tarbase

Sethupathy et al. (2006)

miRU

http://bioinfo3.noble.org/miRU.htm

Zhang (2005)

findmiRNA

http://sundarlab.ucdavis.edu/mirna/

Adai et al. (2005)

MicrPC

http://www.biotec.or.th/isl/micropc

Mhuantong & Wichadakul

(2009)

TAPIR

http://bioinformatics.psb.ugent.be/

Bonnet et al. (2010)

webtools/tapir/

Target-align

http://www.leonxie.com/targetAlign.php

Xie & Zhang (2010)

miRTour

http://bio2server.bioinfo.uni-plovdiv.bg/

Milev et al. (2011)

miRTour/