Welcome to the UEA plant small RNA toolkit
This site provides access to some of our software tools for the analysis of small RNA data. Although some of the tools can also be used for animal small RNA data, this site is primarily geared towards the analysis of plant datasets. We will continue to add features to this site and we welcome your feedback to improve the tools.
We recently published a review on RNA silencing in plants, which discusses the computational analysis of large-scale sRNA datasets (link to article).
Latest addition to the toolbox: SiLoMa - generate graphical maps of individual sRNA loci.Tools available:
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Sequence file pre-processing: Sequence adaptor removal and conversion to FASTA format |
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Filter tool: Filter sequences in large-scale data sets |
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miRProf: Expression profiles of known miRNAs from large scale sRNA data sets |
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miRCat: Identification of miRNA sequences in large-scale sRNA data sets |
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Target prediction tool: Prediction of plant miRNA/ta-siRNA target sequences |
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SiLoCo: Identification and comparison of sRNA-producing loci in large-scale data sets |
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SiLoMa: Generate graphical maps of individual sRNA loci. |
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trans-acting siRNA prediction tool: Detection of phased siRNAs from large-scale sRNA sequence data |
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RNA folding/annotation: For highlighting sRNA locations on a folded RNA sequence. |
