Jae‐Ho Shin

This paper identifies issues with the RELAX software's reproducibility and reliability, showing that it fails to reproduce its own estimates and outputs inconsistent results.

The paper retracts previous claims about relaxed selection on PCWDE genes in ECM fungi and shows gene loss is measurable but not the selective regime of remaining genes.

The paper evaluates DNA foundation models for chimera detection in long-read metagenomic bins, finding that ensembling improves precision over single models.

This paper quantifies how Evo2 likelihood scores calibrate with fitness across five E. coli datasets, showing context-dependent calibration that varies by selection regime and sequence divergence.