Patrick Tam

The paper examines DNA methylation dynamics in marsupial embryos, finding global demethylation in the trophectoderm but not the embryonic lineage, suggesting 5mC erasure in extraembryonic tissue is ancestral in therian mammals.

The paper identifies DKK1 from neural crest cells as a regulator of Wnt signaling in the second heart field, crucial for cardiac outflow tract development and linked to congenital heart disease.

This study constructs a spatiotemporal regulatory framework for mouse gastrulation using multi-omic data and reveals mechanisms of lineage commitment and symmetry breaking.

Refate identifies chemical compounds targeting trans-regulatory networks to enable cellular conversion by integrating single-cell data and drug databases.

The paper shows that activating MIXL1 in hiPSCs improves endoderm differentiation and maturation.

The paper identifies mesendoderm progenitor cells in mouse embryos and shows their contribution to endoderm and mesoderm lineages through lineage tracing and analysis of Mixl1 function.

The paper constructs a single-cell spatio-temporal atlas of molecular trajectories during gastrulation in mouse embryos, revealing asymmetric BMP signaling and its role in left-right body plan asymmetry.

The paper develops LoxCode barcoding to trace clonal fate of epiblast cells in vivo, finding lineage biases and tissue-specific contributions across fetal development.

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

The paper maps spatial and molecular changes in germ layers during primate gastrulation using spatial transcriptomics and 3D modeling.

The paper compares replication stress management in naive and primed pluripotent mouse cells, finding that primed cells use Atr to prevent genomic damage, while naive cells activate Atm and undergo apoptosis.

Cepo identifies cell identity by analyzing differentially stable genes from scRNA-seq data, improving cell-type characterization and spatial mapping.

The paper identifies a TWIST1-chromatin regulatory module critical for neural crest cell differentiation and craniofacial patterning through protein interaction and perturbation studies.

This study identifies TWIST1 homodimers and heterodimers with E-proteins as key regulators of lineage-specific differentiation, revealing their distinct roles in mesoderm, neural crest, and endoderm development.

Ularcirc detects and analyzes circular RNAs using a novel method to filter false positives and provides visualization tools for circRNA characterization.

The paper maps cardiac differentiation at single-cell resolution, identifies HOPX dysregulation, and shows hypertrophic signaling is required for HOPX transcription in hPSC-derived cardiomyocytes.