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Article
Epigenetic control of myeloid cell differentiation, identity and function
The interplay between transcription factors and epigenetic regulators is crucial for regulating gene-expression programmes during haematopoiesis. Epigenetic re...
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Article
Open AccessNF-κB-direct activation of microRNAs with repressive effects on monocyte-specific genes is critical for osteoclast differentiation
Monocyte-to-osteoclast conversion is a unique terminal differentiation process that is exacerbated in rheumatoid arthritis and bone metastasis. The mechanisms implicated in upregulating osteoclast-specific gen...
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Article
Open AccessIL-4 orchestrates STAT6-mediated DNA demethylation leading to dendritic cell differentiation
The role of cytokines in establishing specific transcriptional programmes in innate immune cells has long been recognized. However, little is known about how these extracellular factors instruct innate immune ...
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Article
Exponential scaling of single-cell RNA-seq in the past decade
Here Sarah Teichmann and colleagues provide a Perspective on the exponential scaling of single-cell RNA-sequencing experiments over the last decade, commenting on the methodological developments that have unde...
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Article
Single-cell reconstruction of the early maternal–fetal interface in humans
During early human pregnancy the uterine mucosa transforms into the decidua, into which the fetal placenta implants and where placental trophoblast cells intermingle and communicate with maternal cells. Tropho...
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Article
A cellular census of human lungs identifies novel cell states in health and in asthma
Human lungs enable efficient gas exchange and form an interface with the environment, which depends on mucosal immunity for protection against infectious agents. Tightly controlled interactions between structu...
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Article
Decoding human fetal liver haematopoiesis
Definitive haematopoiesis in the fetal liver supports self-renewal and differentiation of haematopoietic stem cells and multipotent progenitors (HSC/MPPs) but remains poorly defined in humans. Here, using sing...
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Article
CellPhoneDB: inferring cell–cell communication from combined expression of multi-subunit ligand–receptor complexes
Cell–cell communication mediated by ligand–receptor complexes is critical to coordinating diverse biological processes, such as development, differentiation and inflammation. To investigate how the context-dep...
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Protocol
Inference of Ligand–Receptor Pairs from Single-Cell Transcriptomics Data
Cell–cell communication is crucial for development and tissue homeostasis in multicellular organisms. Single-cell transcriptomics has emerged as a revolutionary technique for dissecting cellular compositions a...
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Article
Inherent mosaicism and extensive mutation of human placentas
Placentas can exhibit chromosomal aberrations that are absent from the fetus1. The basis of this genetic segregation, which is known as confined placental mosaicism, remains unknown. Here we investigated the phyl...
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Article
Open AccessA single cell characterisation of human embryogenesis identifies pluripotency transitions and putative anterior hypoblast centre
Following implantation, the human embryo undergoes major morphogenetic transformations that establish the future body plan. While the molecular events underpinning this process are established in mice, they re...
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Article
A roadmap for the Human Developmental Cell Atlas
The Human Developmental Cell Atlas (HDCA) initiative, which is part of the Human Cell Atlas, aims to create a comprehensive reference map of cells during development. This will be critical to understanding nor...
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Article
Open AccessMap** the temporal and spatial dynamics of the human endometrium in vivo and in vitro
The endometrium, the mucosal lining of the uterus, undergoes dynamic changes throughout the menstrual cycle in response to ovarian hormones. We have generated dense single-cell and spatial reference maps of th...
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Article
Author Correction: Inherent mosaicism and extensive mutation of human placentas
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Article
Open AccessSingle-cell Atlas of common variable immunodeficiency shows germinal center-associated epigenetic dysregulation in B-cell responses
Common variable immunodeficiency (CVID), the most prevalent symptomatic primary immunodeficiency, displays impaired terminal B-cell differentiation and defective antibody responses. Incomplete genetic penetran...
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Article
Cell2location maps fine-grained cell types in spatial transcriptomics
Spatial transcriptomic technologies promise to resolve cellular wiring diagrams of tissues in health and disease, but comprehensive map** of cell types in situ remains a challenge. Here we present сell2locat...
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Article
Open AccessRobust temporal map of human in vitro myelopoiesis using single-cell genomics
Myeloid cells are central to homeostasis and immunity. Characterising in vitro myelopoiesis protocols is imperative for their use in research, immunotherapies, and understanding human myelopoiesis. Here, we ge...
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Article
Open AccessAn introduction to spatial transcriptomics for biomedical research
Single-cell transcriptomics (scRNA-seq) has become essential for biomedical research over the past decade, particularly in developmental biology, cancer, immunology, and neuroscience. Most commercially availab...
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Article
Open AccessSingle-cell roadmap of human gonadal development
Gonadal development is a complex process that involves sex determination followed by divergent maturation into either testes or ovaries1. Historically, limited tissue accessibility, a lack of reliable in vitro mo...
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Article
Open AccessA physical wiring diagram for the human immune system
The human immune system is composed of a distributed network of cells circulating throughout the body, which must dynamically form physical associations and communicate using interactions between their cell-su...