G-OnRamp: Generating genome browsers to facilitate undergraduate-driven collaborative genome annotation
Fig 2
After uploading data to Apollo via G-OnRamp’s "Create or Update Organism" tool, a user can choose which tracks to display with computational and experimental evidence, including submitted annotations from students, and begin to create her own gene model in a user-created annotations panel. Pictured is the Apollo interface showing provided sample data and computed lines of evidence, in addition to student annotation data and the final reconciled gene models (shown in the user-created annotations panel). The genome browser image illustrates a typical error by one student annotator at an intron/exon boundary. The standard protocol requires a minimum of two independent student submissions, followed by reconciliation by an experienced student annotator. Based on RNA-Seq data and the use of the noncanonical GC donor site in the informant species (Drosophila melanogaster), the reconciled gene model for the D. takahashii ortholog of eIF4G1 uses a noncanonical GC splice donor site instead of the GT donor site proposed by the student annotator. CDS, codon sequence; RNA-Seq, RNA sequencing.