Welcome to the UEA sRNA toolkit
This site provides access to our software tools for the analysis
of high-throughput small RNA data. This is the plant-specific version of the site. We also provide a version for animal datasets.
We will continue to add more tools and 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).
New: A Java based sRNA workbench is available for download currently containing a subset of the sRNA toolkit functionality.
It is available for download at the following location: srna-workbench.cmp.uea.ac.uk
|Sequence file pre-processing: Sequence adaptor removal and conversion to FASTA format|
|Filter tool: Filter sequences in large-scale data sets|
|miRProf: Expression profiles of known miRNAs from large scale sRNA data sets|
|miRCat: Identification of miRNA sequences in large-scale sRNA data sets|
|Target prediction tool: Prediction of plant miRNA/ta-siRNA target sequences|
|FiRePat: identify regulatory patterns from gene ans sRNA expression data|
|SiLoCo: Identification and comparison of sRNA-producing loci in large-scale data sets|
|SiLoMa: Generate graphical maps of individual sRNA loci.|
|trans-acting siRNA prediction tool: Detection of phased siRNAs from large-scale sRNA sequence data|
|RNA folding/annotation: For highlighting sRNA locations on a folded RNA sequence.|