Visualization Of RNA Editing Events And Characteristic Analysis For Multiple Samples

In the field of molecular genetics,RNA,as a structural component of the ribosome,involved in the expression of genetic information.RNA editing is a post-transcriptional process occurring when DNA transcribed to RNA.In order to unscramble genetic code from RNA editing,keeping a microscopic point of view is essential to probe and analyze what they really are.The RNA data is huge,difficult to measure and the quality of which is jagged,leading to big challenge to detect and identify RNA editing events.However,the current relative softwares keep a variety of shortcomings,such as the program runs slowly,the detection result is unreliable and RNA editing events can't be present and expressed.In addition,the study of biological genetic or disease information need to use multiple RNA samples for comparison,analyze characteristics between samples,then explore the impact of editing differences on biological mechanism.Therefore,a suit of solutions to detection,identification,visualization and characteristic analysis for multiple samples will make sense.On the basis of previous studies,the thesis applied information processing technology to the detection and analysis of RNA editing events,improved the detection and extraction processes,and achieved a variety of adjustable extraction parameters.First,aiming to the visualization of RNA editing events,the thesis had developed a software based on Java and MySQL---RNA Editing Detector(RED),which could be used for detection,identification,filtration,visualization and data analysis of RNA editing and able to run on the full platform after a simple configuration.RED detected and identified the real RNA editing events from massive high-throughput sequencing data,which run fast with the advantages of the database engine.Moreover,RED could also display millions of base group sites,show karyogram overview based on genome,and export diverse visualization result.Second,to reflect the research value of RNA editing events,the thesis,with great effords of group members,proposed a set of processes and tools for characteristics analysis for multiple samples,and deeply studied the pathogenesis of hepatitis B virus from micro perspective based on ten paired samples of liver cancer tissues and normal tissues.The thesis analyzed the distribution of RNA editing in tissues,RNA editing sites in specific regions and the specific expressions of RNA editing by analyzing cancer tissues and paired normal tissues.Through experiments illustrate that HCC displays a severely disrupted A to I RNA editing balance.ADAR1 and ADAR2 manipulate the A to I imbalance of HCC via their differential expression in HCC compared with NT liver tissues.Patients with ADARI overexpression and ADAR2 downregulation in tumours demonstrated an increased risk of liver cirrhosis and postoperative recurrence and had poor prognoses,thereby providing a reliable experimental basis for further study of liver cancer gene lesions.