Daniel J. Simpson

Region-Based Epigenetic Clock Design Improves RRBS-Based Age Prediction

This paper improves age prediction from RRBS data by using region-based methylation averages instead of individual CpGs, showing better performance on external datasets and low coverage data.

Tfap2b specifies an embryonic melanocyte stem cell population that retains adult multi-fate potential

The paper identifies Tfap2b as a marker for melanocyte stem cells in zebrafish, showing their multi-fate potential and role in melanocyte regeneration.

G2M splits mouse embryonic stem cells into naïve and formative pluripotency states

The paper identifies two distinct pluripotency states in mouse embryonic stem cells (mESCs) based on G2M phase enrichment, showing naive and formative states marked by Esrrb expression levels.

Partial reprogramming induces a steady decline in epigenetic age before loss of somatic identity

This study shows that partial reprogramming reduces epigenetic age in human cells but decouples it from the loss of somatic identity, suggesting a safe window for rejuvenation without teratoma risk.

Wilms Tumor 1b defines a wound-specific sheath cell subpopulation associated with notochord repair

The paper identifies a wound-specific notochord sheath cell subpopulation expressing Wilms Tumor 1b that forms a stopper-like structure during vertebra repair in zebrafish.