The project is carried out in collaboration with the Spoke 6 (CNR IGM – Istituto di Genetica Molecolare “Cavalli-Sforza” Pavia) of the National Center for Gene Therapy and Drugs based on RNA Technology and integrates the clinical trial activities identified by the Spoke 6 with the laboratory and bioinformatics expertise present at CRS4.
The experimental approach focuses on Next Generation Sequencing technology and data analysis. The project is divided into 3 Work Packages: – WP1 activities will be aimed at the development of laboratory protocols and bioinformatics pipelines to be able to respond to all the needs of genetic-molecular characterization of the transcriptome and genome; – WP2 involves the validation of the workflow including all protocols and pipelines developed by performing replicate experiments on samples with known results; – WP3 will consist of the application of the workflow on samples that will be sent to the CRS4 NGS platform with a flow of 6 patients per month.
Protocols based on NGS technology including structural changes (short read technology) and post-transcriptional chemical modifications (native RNA/DNA long read technology) of coding and non-coding RNAs will be developed for comprehensive expression profile analysis.
Genome sequencing will provide useful information to elucidate the origins, genetic and epigenetic, of neoplastic transformation of cells. The data produced will be uploaded to an analysis and sharing platform called EvaDB.
