Byung June Ko

The Vertebrate Genomes Project Phase I: A global reference genome resource

The Vertebrate Genomes Project Phase I provides high-quality reference genomes for 816 species, enabling evolutionary and conservation insights across vertebrates.

How and why ampliconic genes survive on the human Y chromosome

The paper investigates how multicopy gene families on the human Y chromosome survive despite lack of recombination, showing that homogenization via palindromes and arrays, along with purifying selection, preserve protein structure essential for fertility.

Scalable, accessible, and reproducible reference genome assembly and evaluation in Galaxy

The paper presents a scalable pipeline for reference genome assembly and evaluation, demonstrating its effectiveness across 51 vertebrate species using Galaxy.

Widespread false gene gains caused by duplication errors in genome assemblies

The paper quantifies false duplications in genome assemblies of platypus, zebra finch, and Anna's hummingbird, showing they lead to overestimated gene family expansions.

False gene and chromosome losses affected by assembly and sequence errors

The paper evaluates new vertebrate genome assemblies from the VGP against previous references, finding significant improvements in completeness and accuracy.

Towards complete and error-free genome assemblies of all vertebrate species

The paper summarizes methods and lessons from assembling 16 vertebrate genomes, highlights the importance of long-read sequencing, and introduces the Vertebrate Genomes Project to generate complete reference genomes for all vertebrate species.