Sophie Shen

Epigenomic regulatory programs reveal the latent heterogeneity of complex diseases

This study identifies latent regulatory programs from disease-associated variants to reveal biological mechanisms and clinical subtypes in complex diseases.

Protocol-dependent cardiomyocyte states determine disease modelling capacity of human iPSCs

This study compares sixteen iPSC-CM differentiation protocols to identify how protocol-dependent cell states affect disease modeling capacity for cardiovascular conditions.

Hierarchical control of cardiomyocyte maturation and ischaemia sensitivity by metabolic culture conditions

This study shows how metabolic culture conditions affect cardiomyocyte maturation and sensitivity to ischaemia-reperfusion injury using hiPSC-CMs.

A community-oriented, data-driven resource to improve protocol design for cardiac modelling from human pluripotent stem cells

The paper develops a resource to improve cardiac modelling protocols using hPSC-CMs by analyzing decades of research data and providing tools for protocol benchmarking.

Inferring cell diversity in single cell data using consortium-scale epigenetic data as a biological anchor for cell identity

The paper introduces TRIAGE-Cluster and TRIAGE-ParseR to define cell diversity in scRNA-seq data using epigenetic data as a biological anchor.

A pluripotent stem cell atlas of multilineage differentiation reveals TMEM88 as a developmental regulator of mammalian blood pressure

The paper creates an iPSC differentiation atlas and identifies TMEM88 as a regulator of mesendodermal development and blood pressure.

HOPX governs a molecular and physiological switch between cardiomyocyte progenitor and maturation gene programs

This study identifies HOPX as a molecular switch regulating cardiomyocyte progenitor and maturation gene programs, linking it to cardiac function and genetic variation.