CLASH data analysis web tool

  • 陳 品豪

Student thesis: Doctoral Thesis

Abstract

RNA interference (RNAi) plays an important role in post-transcriptional regulation of gene expression The CLASH (Cross-linking Ligation and Sequencing of Hybrids) technique can efficiently captures reads which contain information of (regulatory RNA)–(target RNA) interactions by physically joining two RNAs Nevertheless the number of reads containing information are relatively rare; moreover these reads do not provide the identity of regulatory RNA and target RNA Therefore the follow-up bioinformatics analysis is required At present there are three analysis methods (piRTarBase Hyb CLAN) can analyze the reads obtained from the CLASH experiment However each of the three analysis methods has advantages and disadvantages as well as different design processes All of them require biologists to be familiar with the command line interface (CLI) to install and operate Furthermore the result of three analysis methods only gives the identity of the regulatory RNA and target RNA on the read without further analysis of the possible binding site and binding stability of the two RNAs As mentioned above we present a more complete analysis process web tool that allows biologists to analyze data without using CLI have a variety of information to query and easily make an observation by visualizing the analysis results
Date of Award2020
Original languageEnglish
SupervisorWei-Sheng Wu (Supervisor)

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