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-   -   Comprehensive list of microRNA target databases and softwares (http://www.molecularstation.com/forum/molecular-biology-techniques/82758-comprehensive-list-microrna-target-databases-softwares.html)

rnaworld2110 05-16-2011 04:36 PM

Comprehensive list of microRNA target databases and softwares
 
Comprehensive list of microRNA target databases and softwares as follows:

(1)[Only registered and activated users can see links. Click Here To Register...]: it is a gold-standard database of microRNA sequences. it provided links of microRNA targets predicted by other target predictions, such as PicTar. release date: Sept, 2010. website: [Only registered and activated users can see links. Click Here To Register...]

(2)[Only registered and activated users can see links. Click Here To Register...]: A public platform for exploring miRNA-target interactions from CLIP-Seq (HITS-CLIP, PAR-CLIP) and degradome sequencing (PARE) data. It also provides intersections of multiple target predictions, such as Targetscan, PicTar, miRanda, PITA, RNA22 and miRSVR. release date: May, 2011. website: [Only registered and activated users can see links. Click Here To Register...]

(3)[Only registered and activated users can see links. Click Here To Register...]: A database of experimentally supported animal microRNA targets. release date: January, 2009. website: [Only registered and activated users can see links. Click Here To Register...]

(4)miRecords: an integrated microRNA target database. It provides miRNA-target relationships predicted by multiple target predictions, such as Targetscan, PicTar, miRanda, PITA and RNA22.

(5) [Only registered and activated users can see links. Click Here To Register...]: a well-known software for predicting microRNA targets from conserved UTR sequences. It was developed by Bartel lab. release date: April, 2009 (v5.1). website: [Only registered and activated users can see links. Click Here To Register...]

(6) [Only registered and activated users can see links. Click Here To Register...]: a software for predicting microRNA targets by combining multiple microRNAs or targets. It was developed by Rajewsky lab. release date: March, 2007. website: [Only registered and activated users can see links. Click Here To Register...]

(7) [Only registered and activated users can see links. Click Here To Register...]: it predicted microRNA targets based on target-site accessibility and minimum free energy. release date: August, 2008. [Only registered and activated users can see links. Click Here To Register...]

(8) RNA22: it is one of popular microRNA target prediction softwares. release date: 2007. website: [Only registered and activated users can see links. Click Here To Register...]

(9) [Only registered and activated users can see links. Click Here To Register...]. It include software(miRanda) and database (microRNA.org). The newest version of miRanda also be called mirSVR. release date: August, 2010. website: [Only registered and activated users can see links. Click Here To Register...]

(10) [Only registered and activated users can see links. Click Here To Register...]: it is a microrna target database developed by Enright lab at EMBL-EBI. release date: August, 2010. website: [Only registered and activated users can see links. Click Here To Register...]

(11) [Only registered and activated users can see links. Click Here To Register...]: a experimentally verified miRNA target base. October, 2010. website: [Only registered and activated users can see links. Click Here To Register...]

(12)[Only registered and activated users can see links. Click Here To Register...]:a integrated database of microRNA expression and targets. release date: November, 2010. website: [Only registered and activated users can see links. Click Here To Register...]

(13)[Only registered and activated users can see links. Click Here To Register...]: a integrated database of microRNA and their targets. January, 2008. website: [Only registered and activated users can see links. Click Here To Register...]

(14) [Only registered and activated users can see links. Click Here To Register...]: animal microRNA target prediction and functional annotation. release date: August, 2010. website: [Only registered and activated users can see links. Click Here To Register...]

(15) [Only registered and activated users can see links. Click Here To Register...]a easy, fast and flexible software for predicting microRNA targets. release version: v2.1. website:[Only registered and activated users can see links. Click Here To Register...]

rnaworld2110 06-21-2011 08:14 AM

Re: Comprehensive list of microRNA target databases and softwares
 
For Plant microRNA targets:

(1) Targetfinder, predicts small RNA targets in a sequence database using a plant-based scoring metric. release date: Aug, 2010. website: [Only registered and activated users can see links. Click Here To Register...]

(2) starBase: A public platform for exploring miRNA-target interactions from degradome sequencing (Degradome-Seq, PARE) data. release date: May, 2011. website: [Only registered and activated users can see links. Click Here To Register...]

(3)miRU, psRNATarget: an automated plant miRNA target prediction server. website: [Only registered and activated users can see links. Click Here To Register...]

(4) CleaveLand, a pipeline for using degradome data to find cleaved small RNA targets. release date: March, 2010, website: [Only registered and activated users can see links. Click Here To Register...]

(5) Target-align: a tool for plant microRNA target identification. release date: 2010, website: [Only registered and activated users can see links. Click Here To Register...]

rnaworld2110 11-19-2012 12:03 PM

Re: Comprehensive list of microRNA target databases and softwares
 
new miRNA target database.

(1) [Only registered and activated users can see links. Click Here To Register...], decoding the post-transcriptional and transcriptional regulation of microRNAs from CLIP-Seq and ChIP-Seq data. It constructed [Only registered and activated users can see links. Click Here To Register...] regulatory networks.

(2) [Only registered and activated users can see links. Click Here To Register...]: a database of RNA interactions in post-transcriptional regulation.

Deborahdhw 02-11-2013 07:47 AM

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rnaworld2110 09-23-2013 08:13 AM

two new databases for microRNA targets on long non-coding RNAs(lncRNAs), pseudogenes
 
two new databases for microRNA targets on long non-coding RNAs(lncRNAs), pseudogenes, circRNAs...


[Only registered and activated users can see links. Click Here To Register...]: decoding miRNA-lncRNA, miRNA-pseudogene, miRNA-circRNA, miRNA-mRNA, miRNA-ceRNA and protein-RNA interaction networks from experimentally CLIP-Seq (HITS-CLIP, PAR-CLIP, iCLIP, CLASH) data.

[Only registered and activated users can see links. Click Here To Register...]: experimentally verified and computationally predicted microRNA targets on long non-coding RNAs.


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