Joshua M. Brickman

The paper identifies NuRD's role in tethering pioneer factors like SOX2 to transcription sites, enhancing ERK-dependent gene activation and maintaining cell identity.

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.

This study investigates the role of PRC2 in endodermal differentiation by analyzing its impact on gene repression and lineage fidelity in a stem cell model.

The paper identifies a quiescent-like state with reduced nuclear size and transcriptional activity that enables efficient TF-mediated conversion of fibroblasts to neurons.

The paper shows that ERK signalling outcomes vary between cell types due to transcriptional repression and chromatin accessibility changes, with immediate early responses shared but refined by signal duration and gene regulatory networks.

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

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.

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

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.

The paper introduces PIC-seq to study cell-cell contact-specific gene expression during mouse embryonic development and identifies novel gene expression signatures dependent on neighboring cell types.

This study traces the evolutionary origin of OCT4/POU5 functions in supporting pluripotency across vertebrates using sequence analysis and functional studies in mouse ESCs.

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

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.

This study shows how cell-state transitions and collective movement create an endoderm-like region in mouse gastruloids without requiring epithelial-to-mesenchymal transition.