Martin Proks

Suppression of ERK signalling promotes pluripotent epiblast in the human blastocyst

The paper shows that inhibiting ERK signaling expands epiblast cells capable of becoming naive pluripotent stem cells in humans, while FGF stimulation expands hypoblast markers.

Deep Learning Based Models for Preimplantation Mouse and Human Development

This paper uses deep learning to classify and integrate single-cell transcriptomic data from mouse and human preimplantation embryos, defining cell types and states.

Transcription Factor Co-Expression Mediates Lineage Priming for Embryonic and Extra-Embryonic Differentiation

The paper identifies ESCs co-expressing GATA6 and SOX2, showing their cooperative DNA binding in enhancers and role in lineage priming for embryonic and extra-embryonic differentiation.

nf-core/marsseq: systematic pre-processing pipeline for MARS-seq experiments

The paper presents a standardized pre-processing pipeline for MARS-seq data using the nf-core framework, improving transparency, scalability, and RNA velocity estimation.

Enhancer status in the primitive endoderm supports unrestricted lineage plasticity in regulative development

The paper shows that primitive endoderm cells can regenerate a complete blastocyst and develop to term, indicating their lineage plasticity and potential for multi-lineage differentiation.

Transcriptional Heterogeneity and Cell Cycle Regulation as Central Determinants of Primitive Endoderm Priming.

The paper investigates how cell cycle regulation influences transcriptional heterogeneity and lineage priming in embryonic stem cells differentiating into primitive endoderm.

Expansion of Ventral Foregut Primes the Enhancer Landscape for Organ Specific Differentiation

The paper shows that cell proliferation in human embryonic stem cell-derived endodermal progenitors primes enhancer landscapes for organ-specific differentiation by modulating chromatin accessibility and enhancer decommissioning.