Project description:Whole genome sequencing (WGS) of tongue cancer samples and cell line was performed to identify the fusion gene translocation breakpoint. WGS raw data was aligned to human reference genome (GRCh38.p12) using BWA-MEM (v0.7.17). The BAM files generated were further analysed using SvABA (v1.1.3) tool to identify translocation breakpoints. The translocation breakpoints were annotated using custom scripts, using the reference GENCODE GTF (v30). The fusion breakpoints identified in the SvABA analysis were additionally confirmed using MANTA tool (v1.6.0).
Project description:Canine oral melanoma is a highly aggressive tumor with limited therapeutic options and a poor prognosis. To elucidate the molecular mechanisms underlying its progression and response to radiation therapy (RT), we performed a longitudinal multi-omics analysis incorporating whole-genome sequencing (WGS) and RNA sequencing (RNA-seq) on tumor and blood samples from a single canine case. WGS was performed on tumor and blood collected before RT (Pre-RT) and on blood collected immediately after the final radiation fraction (Post-RT 0m). RNA-seq was performed on tumor and blood collected before RT (Pre-RT) and immediately after the final radiation fraction (Post-RT 0m), and on tumor collected 4 months after RT (Post-RT 4m).
