Don Gilbert

This paper compares DNA shotgun read measurements and cytometric genome size estimates across species, finding discrepancies and highlighting the need for better measurement controls.

This paper evaluates DNA read types for measuring genome contents and sizes, finding mixed results with long reads showing discrepancies between cytometric and assembly measurements.

The paper assesses genome size discrepancies using Gnodes, finding that cytometric measures are often accurate and that assembly methods under-measure duplicated genomic regions.

Gnodes estimates genome size and assembly accuracy in animals and plants by analyzing DNA coverage of gene spans, showing high agreement with flow cytometry.

Across human, pig and plant reference gene sets, keeping the longest coding sequence recovers more true gene models than longest-transcript or highest-expression filters, which drop alternates and paralogs.

The paper reports a comprehensive gene set for the pig, Sus scrofa, reconstructed from RNA-seq data using the EvidentialGene pipeline, improving upon existing reference gene sets.