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A roadmap for the Human Developmental Cell Atlas

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TLDR
The Human Developmental Cell Atlas (HDCA) project as discussed by the authors aims to create a comprehensive reference map of cells during development by mapping and modelling human development using state-of-the-art technologies.
Abstract
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 normal organogenesis, the effect of mutations, environmental factors and infectious agents on human development, congenital and childhood disorders, and the cellular basis of ageing, cancer and regenerative medicine. Here we outline the HDCA initiative and the challenges of mapping and modelling human development using state-of-the-art technologies to create a reference atlas across gestation. Similar to the Human Genome Project, the HDCA will integrate the output from a growing community of scientists who are mapping human development into a unified atlas. We describe the early milestones that have been achieved and the use of human stem-cell-derived cultures, organoids and animal models to inform the HDCA, especially for prenatal tissues that are hard to acquire. Finally, we provide a roadmap towards a complete atlas of human development. This Perspective outlines the Human Developmental Cell Atlas initiative, which uses state-of-the-art technologies to map and model human development across gestation, and discusses the early milestones that have been achieved.

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Cells of the human intestinal tract mapped across space and time.

TL;DR: The cellular landscape of the human intestinal tract is dynamic throughout life, developing in utero and changing in response to functional requirements and environmental exposures as discussed by the authors, using single-cell RNA sequencing and antigen receptor analysis of almost half a million cells from up to 5 anatomical regions of the developing and up to 11 distinct anatomical regions in the healthy human gut.
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What is a cell type and how to define it?

Hongkui Zeng
- 01 Jul 2022 - 
TL;DR: An overview of the basic principles of cell types rooted in evolution and development and approaches to characterize and classify cell types and investigate how they contribute to the organism's function, using the mammalian brain as a primary example as mentioned in this paper .
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Early human embryonic development: Blastocyst formation to gastrulation.

TL;DR: Rossant and Tam as mentioned in this paper discuss new insights into human embryogenesis gathered from successes in culturing human embryos in vitro and stem-cell-based embryo models, and outline what questions still need answering.
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ConsensusPathDB 2022: molecular interactions update as a resource for network biology.

TL;DR: ConsensusPathDB (http://consensuspathdb.org) is a meta-database combining interactions of diverse types from 31 public resources for humans, 16 for mice and 14 for yeasts as discussed by the authors.
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Generation and characterization of hair-bearing skin organoids from human pluripotent stem cells

TL;DR: In this article , a detailed protocol for generating hair-bearing skin tissue entirely from a homogeneous population of human pluripotent stem cells in a three-dimensional in vitro culture system is described.
References
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The cis-regulatory dynamics of embryonic development at single-cell resolution

TL;DR: The results show that there is spatial heterogeneity in the accessibility of the regulatory genome before gastrulation, a feature that aligns with future cell fate, and that nuclei can be temporally ordered along developmental trajectories.
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Single-Cell Transcriptome Analysis Maps the Developmental Track of the Human Heart.

TL;DR: This study used single-cell RNA sequencing to profile the gene expression landscapes of ∼4,000 cardiac cells from human embryos and identified four major types of cells: cardiomyocytes, cardiac fibroblasts, endothelial cells (ECs), and valvar interstitial cells (VICs).
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Lineage Tracing in Humans Enabled by Mitochondrial Mutations and Single-Cell Genomics.

TL;DR: This work shows that somatic mutations in mtDNA can be tracked by single-cell RNA or assay for transposase accessible chromatin (ATAC) sequencing and leverages somatic mtDNA mutations as natural genetic barcodes and demonstrates their utility as highly accurate clonal markers to infer cellular relationships.
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An in vitro model of early anteroposterior organization during human development

TL;DR: This study shows that human embryonic stem cells can be used to generate gastruloids—three-dimensional multicellular aggregates that differentiate to form derivatives of the three germ layers organized spatiotemporally, without additional extra-embryonic tissues.