Pluripotent stem cell-derived model of the post-implantation human embryo

Origin and segregation of the human germline

(2023) Aracely Castillo-Venzor et al.   Life Science Alliance

Early human embryonic development: Blastocyst formation to gastrulation

(2022) Janet Rossant et al.   DEVELOPMENTAL CELL

In vitro attachment and symmetry breaking of a human embryo model assembled from primed embryonic stem cells

(2022) Mijo Simunovic et al.   Cell Stem Cell

Efficient differentiation of human primordial germ cells through geometric control reveals a key role for Nodal signaling

(2022) Kyoung Jo et al.   eLife

¬Post-Gastrulation Synthetic Embryos Generated Ex Utero from Mouse Naïve ESCs

(2022) Shadi Tarazi et al.   CELL

Microgel culture and spatial identity mapping elucidate the signalling requirements for primate epiblast and amnion formation

(2022) Clara Munger et al.   DEVELOPMENT

Mouse embryo model derived exclusively from embryonic stem cells undergoes neurulation and heart development

(2022) Kasey Y.C. Lau et al.   Cell Stem Cell

Modeling human extraembryonic mesoderm cells using naive pluripotent stem cells

(2022) Thi Xuan Ai Pham et al.   Cell Stem Cell

Embryo model completes gastrulation to neurulation and organogenesis

(2022) Gianluca Amadei et al.   NATURE

Multi-omic single-cell velocity models epigenome–transcriptome interactions and improves cell fate prediction

(2022) Chen Li et al.   NATURE BIOTECHNOLOGY

Naive stem cell blastocyst model captures human embryo lineage segregation

(2021) Ayaka Yanagida et al.   Cell Stem Cell

Modelling human blastocysts by reprogramming fibroblasts into iBlastoids

(2021) Xiaodong Liu et al.   NATURE

Blastocyst-like structures generated from human pluripotent stem cells

(2021) Leqian Yu et al.   NATURE

Modular, efficient and constant-memory single-cell RNA-seq preprocessing

(2021) Páll Melsted et al.   NATURE BIOTECHNOLOGY

A single cell characterisation of human embryogenesis identifies pluripotency transitions and putative anterior hypoblast centre

(2021) Matteo A. Molè et al.   Nature Communications

Reconstructing aspects of human embryogenesis with pluripotent stem cells

(2021) Berna Sozen et al.   Nature Communications

An in vitro stem cell model of human epiblast and yolk sac interaction

(2021) Kirsty ML Mackinlay et al.   eLife

Human embryo research, stem cell-derived embryo models and in vitro gametogenesis: Considerations leading to the revised ISSCR guidelines

(2021) Amander T. Clark et al.   Stem Cell Reports

Human blastoids model blastocyst development and implantation

(2021) Harunobu Kagawa et al.   NATURE

Single-cell transcriptomic characterization of a gastrulating human embryo

(2021) Richard C. V. Tyser et al.   NATURE

Single-cell chromatin state analysis with Signac

(2021) Tim Stuart et al.   NATURE METHODS

CellPhoneDB: inferring cell–cell communication from combined expression of multi-subunit ligand–receptor complexes

(2020) Mirjana Efremova et al.   Nature Protocols

Derivation of trophoblast stem cells from naïve human pluripotent stem cells

(2020) Chen Dong et al.   eLife

An in vitro model of early anteroposterior organization during human development

(2020) Naomi Moris et al.   NATURE

Origin and function of the yolk sac in primate embryogenesis

(2020) Connor Ross et al.   Nature Communications

Reprogramming roadmap reveals route to human induced trophoblast stem cells

(2020) Xiaodong Liu et al.   NATURE

Sox17 and β-catenin co-occupy Wnt-responsive enhancers to govern the endoderm gene regulatory network

(2020) Shreyasi Mukherjee et al.   eLife

Cell Mechanics in Embryoid Bodies

(2020) Kira Zeevaert et al.   Cells

Inducible Stem-Cell-Derived Embryos Capture Mouse Morphogenetic Events In Vitro

(2020) Gianluca Amadei et al.   DEVELOPMENTAL CELL

Comprehensive Integration of Single-Cell Data

(2019) Tim Stuart et al.   CELL

A 3D model of a human epiblast reveals BMP4-driven symmetry breaking

(2019) Mijo Simunovic et al.   NATURE CELL BIOLOGY

Reconstituting the transcriptome and DNA methylome landscapes of human implantation

(2019) Fan Zhou et al.   NATURE

Controlled modelling of human epiblast and amnion development using stem cells

(2019) Yi Zheng et al.   NATURE

Naïve human pluripotent stem cells respond to Wnt, Nodal and LIF signalling to produce expandable naïve extra-embryonic endoderm

(2019) Madeleine Linneberg-Agerholm et al.   DEVELOPMENT

In vitro culture of cynomolgus monkey embryos beyond early gastrulation

(2019) Huaixiao Ma et al.   SCIENCE

A developmental landscape of 3D-cultured human pre-gastrulation embryos

(2019) Lifeng Xiang et al.   NATURE

Human Primordial Germ Cells Are Specified from Lineage-Primed Progenitors

(2019) Di Chen et al.   Cell Reports

Wnt Inhibition Facilitates RNA-Mediated Reprogramming of Human Somatic Cells to Naive Pluripotency

(2019) Nicholas Bredenkamp et al.   Stem Cell Reports

scmap: projection of single-cell RNA-seq data across data sets

(2018) Vladimir Yu Kiselev et al.   NATURE METHODS

Single-cell transcriptomes from human kidneys reveal the cellular identity of renal tumors

(2018) Matthew D. Young et al.   SCIENCE

chromVAR: inferring transcription-factor-associated accessibility from single-cell epigenomic data

(2017) Alicia N Schep et al.   NATURE METHODS

GATA2/3-TFAP2A/C transcription factor network couples human pluripotent stem cell differentiation to trophectoderm with repression of pluripotency

(2017) Christian Krendl et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

switchde: inference of switch-like differential expression along single-cell trajectories

(2016) Kieran R. Campbell et al.   BIOINFORMATICS

Single-Cell RNA-Seq Reveals Lineage and X Chromosome Dynamics in Human Preimplantation Embryos

(2016) Sophie Petropoulos et al.   CELL

Self-organization of the in vitro attached human embryo

(2016) Alessia Deglincerti et al.   NATURE

A developmental coordinate of pluripotency among mice, monkeys and humans

(2016) Tomonori Nakamura et al.   NATURE

Near-optimal probabilistic RNA-seq quantification

(2016) Nicolas L Bray et al.   NATURE BIOTECHNOLOGY

Self-organization of the human embryo in the absence of maternal tissues

(2016) Marta N. Shahbazi et al.   NATURE CELL BIOLOGY

Defining the three cell lineages of the human blastocyst by single-cell RNA-seq

(2015) Paul Blakeley et al.   DEVELOPMENT

Gata6 potently initiates reprograming of pluripotent and differentiated cells to extraembryonic endoderm stem cells

(2015) Sissy E. Wamaitha et al.   GENES & DEVELOPMENT

A method to recapitulate early embryonic spatial patterning in human embryonic stem cells

(2014) Aryeh Warmflash et al.   NATURE METHODS

Single-cell RNA-Seq profiling of human preimplantation embryos and embryonic stem cells

(2013) Liying Yan et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Dynamics of anterior–posterior axis formation in the developing mouse embryo

(2012) Samantha A. Morris et al.   Nature Communications

Establishment of Endoderm Progenitors by SOX Transcription Factor Expression in Human Embryonic Stem Cells

(2008) Cheryle A. Séguin et al.   Cell Stem Cell