ArticleNature communications2017
Dynamics of lineage commitment revealed by single-cell transcriptomics of differentiating embryonic stem cells.
Article in Nature communications, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 114 papers.
What it found
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Who cites it
114 citing papers in PubMed.
- Integrating zero-inflation correction and transcriptional kinetics for single-cell transcriptomic analysis.PLoS computational biology · 2026Article
- IAGRN: An Interleaved-Attention Graph Neural Network for Gene Regulatory Network Inference.International journal of molecular sciences · 2026Article
- Cell trajectory inference based on schrödinger problem and a mechanistic model of stochastic gene expression.NPJ systems biology and applications · 2026Article
- scRAPID-web: a web server for predicting protein-RNA interactions from single-cell transcriptomics.BMC genomics · 2026Article
- esBAF and INO80C fine-tune subcompartments and differentially regulate enhancer-promoter interactions.Genetics · 2026Article
- RiboBright reveals cell-type-specific differences in ribosome organization and movement.Nature communications · 2026Article
- Inferring Gene Regulatory Networks From Single-Cell RNA Sequencing Data by Dual-Role Graph Contrastive Learning.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Compositional data modeling of high-dimensional single cell RNA-seq (CoDA-hd): its advantages over commonly used normalization approaches.Journal of translational medicine · 2025Article
- esBAF and INO80C fine-tune subcompartments and differentially regulate enhancer-promoter interactions.bioRxiv : the preprint server for biology · 2025Article
- The exit from naive pluripotency: a platform for the study of enhancer mechanistics.Biochemical Society transactions · 2025Review
- Noise-driven morphogenesis independent of transcriptional regulatory programs.bioRxiv : the preprint server for biology · 2025Article
- Modeling combinatorial regulation from single-cell multi-omics provides regulatory units underpinning cell type landscape using cRegulon.Genome biology · 2025Article
- Live-cell omics with Raman spectroscopy.Microscopy (Oxford, England) · 2025Review
- Uncovering candidate Nanog-Helper genes in early mouse embryo differentiation using differential entropy and network inference.Scientific reports · 2025Article
- Small molecule- and cell contact-inducible systems for controlling expression and differentiation in mouse embryonic stem cells.Development (Cambridge, England) · 2025Article
- Optimal transport reveals dynamic gene regulatory networks via gene velocity estimation.PLoS computational biology · 2025Article
- Article
- ZNF143 is a transcriptional regulator of nuclear-encoded mitochondrial genes that acts independently of looping and CTCF.Molecular cell · 2025Article
- Optimized network inference for immune diseased single cells.Frontiers in immunology · 2025Article
- Regulation of PKCi-mediated pluripotency and gene expression by polycomb complex 1 in mouse embryonic stem cells.American journal of translational research · 2025Article
54 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
6 authors.
Funding
Abstract
Gene expression heterogeneity in the pluripotent state of mouse embryonic stem cells (mESCs) has been increasingly well-characterized. In contrast, exit from pluripotency and lineage commitment have not been studied systematically at the single-cell level. Here we measure the gene expression dynamics of retinoic acid driven mESC differentiation from pluripotency to lineage commitment, using an unbiased single-cell transcriptomics approach. We find that the exit from pluripotency marks the start of a lineage transition as well as a transient phase of increased susceptibility to lineage specifying signals. Our study reveals several transcriptional signatures of this phase, including a sharp increase of gene expression variability and sequential expression of two classes of transcriptional regulators. In summary, we provide a comprehensive analysis of the exit from pluripotency and lineage commitment at the single cell level, a potential stepping stone to improved lineage manipulation through timing of differentiation cues.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.