MTide statistics

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MTide specifications

Information


Unique identifier OMICS_05841
Name MTide
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages Perl
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Zhao Zhang <>

Publication for MTide

MTide in publications

 (5)
PMCID: 5673675
PMID: 29017967
DOI: 10.1016/j.gpb.2017.01.007

[…] engine and the rna-hybrid search engine, respectively. moreover, several integrated bioinformatics tools and software have been developed to identify and predict mirnas and their targets (). taking mtide for example, the combination of a modified mirdeep2 , a modified cleaveland4 , and some other useful scripts is used to calculate¬†expression profiles of known mirs, predict novel mirnas, […]

PMCID: 5571589
PMID: 28836935
DOI: 10.1186/s12864-017-3999-5

[…] were used for the prediction of novel mirnas using mireap (http://sourceforge.net/projects/mireap/), a software developed by bgi. also, both dnaman 8 (http://www.lynnon.com/pc/framepc.html) and mtide (http://bis.zju.edu.cn/mtide) [] were used for the prediction of novel mirnas. only these mirna candidates being simultaneously predicted by the three softwares were regarded to be novel […]

PMCID: 4790630
PMID: 26962011
DOI: 10.1038/srep22900

[…] generation of new mirnas. these phenomena are consistent with previous reports on the mirnas of both plants and animals., the remaining non-annotated sequences (538,928 reads; ) were assigned using mtide software (http://bis.zju.edu.cn/mtide/) for novel mirna prediction. finally, 312 candidate novel mirnas were identified, and their characteristic hairpin structure formation ability […]

PMCID: 4778066
PMID: 26973661
DOI: 10.3389/fpls.2016.00201

[…] of mirna and mirna* (16), maximal bulge of mirna and mirna* (4), maximal asymmetry of mirna/mirna* duplex (4) and flank sequence length of mirna precursor (20; lu et al., ). in addition, we used mtide (http://bis.zju.edu.cn/mtide; zhang et al., ) and dnaman 8 (http://www.lynnon.com/pc/framepc.html) to predict novel mirna. only these mirna candidates that were simultaneously predicted […]

PMCID: 4634795
PMID: 26538180
DOI: 10.1186/s12870-015-0642-y

[…] by the bgi, by exploring the secondary structure, the dicer cleavage site and the minimum free energy of the unannotated small rna tags which could be mapped to genome. in addition, we used mtide: an integrated tool for the identification of mirna-target interaction in plants (http://bis.zju.edu.cn/mtide) [] and dnaman 8 (http://www.lynnon.com/pc/framepc.html) to predict novel mirna. […]


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MTide institution(s)
Department of Bioinformatics, State Key Laboratory of Plant Physiology and Biochemistry, College of Life Sciences, Zhejiang University, Hangzhou, China; Department of Control Science and Engineering, Zhejiang University, Hangzhou, China

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