Pluripotent Stem Cells Research

Induction of Ventral Spinal V0 Interneurons from Mouse Embryonic Stem Cells

This paper develops a protocol to induce ventral spinal V0 interneurons from mouse embryonic stem cells using retinoic acid, purmorphamine, and DAPT.

Auxin-degron system identifies immediate mechanisms of Oct4

This study uses an auxin-degron system to show that Oct4 depletion reduces pluripotency factor expression and enhances Nanog genome binding while decreasing H3K27ac marks.

Newly synthesized RNA Sequencing Characterizes Transcription Dynamics in Three Pluripotent States

This study uses TT-seq to analyze RNA synthesis dynamics in three mouse pluripotent states, finding reduced RNA synthesis and elongation velocity in 2i and mTORi states.

Investigation of Thyroid Hormone Associated Gene-Regulatory Networks during Hepatogenesis using an Induced Pluripotent Stem Cell based Model

This study uses thyroid hormones to mature hepatocyte-like cells derived from iPSCs, showing improved expression of adult markers and reduced fetal markers.

INO80 promotes H2A.Z occupancy to regulate 1 cell fate transition in pluripotent stem cells

Induce Pluripotency via Specific distal enhancer-promoter associations

This study identifies specific distal enhancer-promoter associations that can reprogram MEF cells into iPS-like clones, demonstrating a method to generate pluripotent cells through 3D chromatin conformation.

Mapping Human Pluripotent Stem Cell Derived Erythroid Differentiation by Single-Cell Transcriptome Analysis

This study maps the differentiation trajectory of iPSC-derived erythroid cells using single-cell transcriptomics, identifying key transcription factors and cell types.

Craniofacial cartilage organoids from human embryonic stem cells via a neural crest cell intermediate

This study generates craniofacial cartilage organoids from human embryonic stem cells via a neural crest cell intermediate, expressing cartilage markers and growth factors.

BRD9-containing non-canonical BAF complexes safeguard cell identity and prevent reprogramming

This study shows that BRD9 and ncBAF complexes maintain somatic cell identity and hinder reprogramming, with BRD9 inhibition increasing iPSC generation efficiency.

Integrating central and peripheral neurons in elongating multi-lineage-organized gastruloids

The paper develops a novel gastruloid model integrating central and peripheral nervous system development to study early neurodevelopment and opioid receptor effects.

Cardioids reveal self-organizing principles of human cardiogenesis

This paper establishes self-organizing cardioids from human pluripotent stem cells that form chamber-like structures and identifies signaling pathways governing their development.

Differentiation of cortical brain organoids and optic nerve-like structures from retinal confluent cultures of pluripotent stem cells

This paper describes a protocol to generate cortical brain organoids and optic nerve-like structures from retinal confluent cultures of pluripotent stem cells, showing transcriptional similarity to fetal cortex and functional network activity.

Ranking Reprogramming Factors for Directed Differentiation

The paper evaluates nine computational methods for identifying and ranking reprogramming factors in directed differentiation, finding that chromatin accessibility-based methods like DeepAccess and AME perform best.

Quantitative comparison of in vitro and in vivo embryogenesis at a single cell resolution

The paper compares in vitro and in vivo embryogenesis using scRNA-seq data and computational tools to evaluate stem cell differentiation protocols.

Capacity to erase gene occlusion is a defining feature distinguishing naive from primed pluripotency

The paper identifies gene occlusion erasure as a defining difference between naive and primed pluripotency states, showing Esrrb-dependent deocclusion sustains naive pluripotency.

REPRESSION BY HDAC3 AND DAX1 MEDIATES LINEAGE RESTRICTION OF EMBRYONIC STEM CELLS

This study identifies Hdac3 and Dax1 as repressors that restrict mESCs from transdifferentiating into extraembryonic endoderm by silencing Gata6 enhancers, while Nr5a2 and Esrrb promote this conversion.

Tripartite Inhibition of SRC-WNT-PKC Signalling Consolidates Human Naive Pluripotency

This study identifies signaling pathways that enable the expansion of human naive pluripotent stem cells in defined conditions and highlights differences between mouse and human naive pluripotency.

Using Human Induced Pluripotent Stem Cell Derived Organoids to Identify New Pathologies in Patients with PDX1 Mutations

This study uses patient-derived organoids to identify new pathologies in individuals with PDX1 mutations, revealing intestinal and gastric metaplasia.

Age-related pathological impairments in induced neurons derived from patients with idiopathic Parkinson's disease

This study generates patient-derived induced dopaminergic neurons to show age-related autophagy impairments and alpha-synuclein accumulation in Parkinson's disease.

Reprogramming Epiblast Stem Cells into Pre-Implantation Blastocyst Cell-like Cells

The paper reprograms epiblast stem cells into blastocyst-like cells using single-cell RNA sequencing and identifies three major cell fate populations.

Automatic identification of small molecules that promote cell conversion and reprogramming

DECCODE identifies small molecules that enhance cell reprogramming and conversion using transcriptional data and drug profiles.

Gastruloids generated without exogenous Wnt activation develop anterior neural tissues

This study develops a method to generate gastruloids with anterior neural tissues by inhibiting WNT signaling in mouse ESCs without exogenous Wnt activation.

Measurement of activity of developmental signal transduction pathways to quantify stem cell pluripotency and phenotypically characterize differentiated cells

The paper quantifies stem cell pluripotency and differentiation states by measuring activity of developmental signaling pathways across different cell types and culture conditions.

A specialized mRNA translation circuit instated in pluripotency presets the competence for cardiogenesis in humans

The paper shows that RBPMS controls mRNA translation in pluripotent hESCs to preset cardiac fate competence, which is critical for cardiogenesis.

Decoding molecular markers and transcriptional circuitry of naive and primed states of human pluripotency

The paper identifies molecular markers and transcriptional circuits defining naive and primed human pluripotency states using weighted gene co-expression network analysis.

Human Naive Epiblast Cells Possess Unrestricted Lineage Potential

The paper shows human naive epiblast cells can generate trophectoderm and trophoblast cells, unlike mouse embryonic stem cells, and identifies key regulators of this process.

Capturing Human Trophoblast Development with Naive Pluripotent Stem Cells In Vitro

This study shows that naive human pluripotent stem cells can recapitulate trophoblast development in vitro, producing cells that resemble human placental trophoblasts.

Reprogramming enriches for somatic cell clones with small scale mutations in cancer-associated genes

The paper shows that reprogramming enriches for mutations in cancer-associated genes in hiPSCs, potentially increasing tumor risk.

Directed differentiation of hPSCs through lateral plate mesoderm for generation of articular cartilage progenitors

This study differentiates human pluripotent stem cells through lateral plate mesoderm to generate articular cartilage progenitors and preosteoblasts in a chemically defined protocol.

Gastruloids as in vitro models of embryonic blood development with spatial and temporal resolution

This study uses gastruloids to model embryonic blood development, identifying blood progenitor cells and their spatial localization with spatiotemporal resolution.