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TargetSpy specifications

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Unique identifier OMICS_06685
Name TargetSpy
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for TargetSpy

TargetSpy in publications

 (27)
PMCID: 5615367
PMID: 28925938
DOI: 10.3390/genes8090234

[…] information, such as the presence of unexpected viral or bacterial rna molecules., mirnaconstarget: consensus target prediction on user-provided input data based on miranda [], pita [] and targetspy [] for animal micrornas and psrobot [] and tapir (target prediction for plant micrornas) [] for plant micrornas., srnajbrowser: visualization of srna expression data in a genome context […]

PMCID: 5567286
PMID: 28831113
DOI: 10.1038/s41598-017-09515-4

[…] mrna were retrieved from the genome reference. due to difference in sensitivity and specificity of different target prediction algorithms, targets were predicted using 3 tools: miranda, pita and targetspy in small rna analysis server srnatoolbox. if the same target site is predicted by all 3 tools it was considered a potential microrna target. for pita, prediction parameters chosen were: […]

PMCID: 5459850
PMID: 28584262
DOI: 10.1038/s41598-017-02632-0

[…] targets were kept if the corresponding mirna was upregulated (supplementary table )., mature sequences of novel mirnas were analysed for targets in the 3′ utrs of rat refseq transcripts using the targetspy v1.1, miranda v3.3a and targetscan v7.0 tools. to reduce the false positive rate, only targets that were predicted by all three programs were accepted (supplementary table )., lists […]

PMCID: 5418855
PMID: 28472924
DOI: 10.1186/s12864-017-3741-3

[…] the sav groups (additional file ). however, this mirna may have been more accurately measured in the deseq2 analysis (4x times decrease, table )., the four mirna target prediction tools rnahybrid, targetspy, pita and miranda [, ] were applied to predict the target genes. two different approaches were used for selecting the genes used as input. first, we used a knowledge based approach […]

PMCID: 5382551
PMID: 28383034
DOI: 10.1038/srep46026

[…] five different prediction algorithms was applied: miranda: (http://www.microrna.org/microrna/getdownloads.do); pictar (www.pictar.org); pita: (genie.weizmann.ac.il/pubs/mir07/mir07_prediction.html), targetspy (http://webclu.bio.wzw.tum.de/targetspy/index.php?down=true); target-scans: (genes.mit.edu/targetscan). only fully-consensus predicted targets were considered for initial target […]

TargetSpy institution(s)
Institute of Bioinformatics and Systems Biology, Helmholtz Zentrum München, Neuherberg, Germany

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