This webinar walks participants through a complete de novo transcript discovery workflow using QIAGEN CLC Genomics Workbench and the Transcript Discovery tools. Using a real-world dataset from the wild strawberry Fragaria vesca — combining PacBio long reads and Illumina short reads, attendees will learn how to move from raw RNA-seq data to a newly annotated reference genome ready for downstream expression analysis.

You will learn to:

• - Run the Large Gap Read Mapper to align RNA-seq reads to a genomic reference while accounting for introns

• - Use the Transcript Discovery tool to predict novel genes, transcripts, splice variants, and coding regions from read mapping data

• - Incorporate prior annotation knowledge to update and improve an existing reference annotation

• - Generate a new annotated reference genome from your discovered transcripts

• - Run RNA-seq expression analysis against your new reference to quantify gene and transcript expression

• - Interpret output tracks including predicted genes, rejected events, and splice junctions