標題: miRSeq: A User-Friendly Standalone Toolkit for Sequencing Quality Evaluation and miRNA Profiling
作者: Pan, Cheng-Tsung
Tsai, Kuo-Wang
Hung, Tzu-Min
Lin, Wei-Chen
Pan, Chao-Yu
Yu, Hong-Ren
Li, Sung-Chou
生物資訊及系統生物研究所
Institude of Bioinformatics and Systems Biology
公開日期: 2014
摘要: MicroRNAs (miRNAs) present diverse regulatory functions in a wide range of biological activities. Studies on miRNA functions generally depend on determining miRNA expression profiles between libraries by using a next-generation sequencing (NGS) platform. Currently, several online web services are developed to provide small RNANGS data analysis. However, the submission of large amounts of NGS data, conversion of data format, and limited availability of species bring problems. In this study, we developed miRSeq to provide alternatives. To test the performance, we had small RNA NGS data from four species, including human, rat, fly, and nematode, analyzed with miRSeq. The alignments results indicate that miRSeq can precisely evaluate the sequencing quality of samples regarding percentage of self-ligation read, read length distribution, and read category. miRSeq is a user-friendly standalone toolkit featuring a graphical user interface (GUI). After a simple installation, users can easily operate miRSeq on a PC or laptop by using a mouse. Within minutes, miRSeq yields useful miRNA data, including miRNA expression profiles, 3\' end modification patterns, and isomiR forms. Moreover, miRSeq supports the analysis of up to 105 animal species, providing higher flexibility.
URI: http://hdl.handle.net/11536/24957
http://dx.doi.org/10.1155/2014/462135
ISSN: 2314-6133
DOI: 10.1155/2014/462135
期刊: BIOMED RESEARCH INTERNATIONAL
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