miTRATA: a web-based tool for microRNA Truncation and Tailing Analysis | Zendy

Parth Patel | Zendy; S. Deepthi Ramachandruni | Zendy; Atul Kakrana | Zendy; Mayumi Nakano | Zendy; Blake C. Meyers | Zendy

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miTRATA: a web-based tool for microRNA Truncation and Tailing Analysis

Author(s) -

Parth Patel,

S. Deepthi Ramachandruni,

Atul Kakrana,

Mayumi Nakano,

Blake C. Meyers

Publication year - 2015

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/btv583

Subject(s) - computer science , python (programming language) , scalability , json , operating system , web service , world wide web , small rna , computational biology , microrna , database , programming language , biology , genetics , gene

We describe miTRATA, the first web-based tool for microRNA Truncation and Tailing Analysis--the analysis of 3' modifications of microRNAs including the loss or gain of nucleotides relative to the canonical sequence. miTRATA is implemented in Python (version 3) and employs parallel processing modules to enhance its scalability when analyzing multiple small RNA (sRNA) sequencing datasets. It utilizes miRBase, currently version 21, as a source of known microRNAs for analysis. miTRATA notifies user(s) via email to download as well as visualize the results online. miTRATA's strengths lie in (i) its biologist-focused web interface, (ii) improved scalability via parallel processing and (iii) its uniqueness as a webtool to perform microRNA truncation and tailing analysis.

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