Literature DB >> 34497388

A roadmap for the Human Developmental Cell Atlas.

Muzlifah Haniffa1,2,3, Deanne Taylor4,5, Sten Linnarsson6, Bruce J Aronow7, Gary D Bader8, Roger A Barker9,10, Pablo G Camara11, J Gray Camp12, Alain Chédotal13, Andrew Copp14, Heather C Etchevers15, Paolo Giacobini16, Berthold Göttgens9,17, Guoji Guo18, Ania Hupalowska19, Kylie R James20, Emily Kirby21, Arnold Kriegstein22, Joakim Lundeberg23, John C Marioni24, Kerstin B Meyer20, Kathy K Niakan25,26, Mats Nilsson27, Bayanne Olabi28, Dana Pe'er29, Aviv Regev19,30,31, Jennifer Rood19, Orit Rozenblatt-Rosen19,31, Rahul Satija32, Sarah A Teichmann20,33, Barbara Treutlein34, Roser Vento-Tormo20, Simone Webb28.   

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.
© 2021. Springer Nature Limited.

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Year:  2021        PMID: 34497388     DOI: 10.1038/s41586-021-03620-1

Source DB:  PubMed          Journal:  Nature        ISSN: 0028-0836            Impact factor:   69.504


  112 in total

1.  An in vitro model of early anteroposterior organization during human development.

Authors:  Naomi Moris; Kerim Anlas; Susanne C van den Brink; Anna Alemany; Julia Schröder; Sabitri Ghimire; Tina Balayo; Alexander van Oudenaarden; Alfonso Martinez Arias
Journal:  Nature       Date:  2020-06-11       Impact factor: 49.962

Review 2.  Developmental origins of adult disease.

Authors:  Rebecca A Simmons
Journal:  Pediatr Clin North Am       Date:  2009-06       Impact factor: 3.278

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

Authors:  Mijo Simunovic; Jakob J Metzger; Fred Etoc; Anna Yoney; Albert Ruzo; Iain Martyn; Gist Croft; Dong Shin You; Ali H Brivanlou; Eric D Siggia
Journal:  Nat Cell Biol       Date:  2019-07-01       Impact factor: 28.824

4.  Spatial and temporal mapping of de novo mutations in schizophrenia to a fetal prefrontal cortical network.

Authors:  Suleyman Gulsuner; Tom Walsh; Amanda C Watts; Ming K Lee; Anne M Thornton; Silvia Casadei; Caitlin Rippey; Hashem Shahin; Vishwajit L Nimgaonkar; Rodney C P Go; Robert M Savage; Neal R Swerdlow; Raquel E Gur; David L Braff; Mary-Claire King; Jon M McClellan
Journal:  Cell       Date:  2013-08-01       Impact factor: 41.582

5.  Regenerative lineages and immune-mediated pruning in lung cancer metastasis.

Authors:  Ashley M Laughney; Jing Hu; Nathaniel R Campbell; Samuel F Bakhoum; Manu Setty; Vincent-Philippe Lavallée; Yubin Xie; Ignas Masilionis; Ambrose J Carr; Sanjay Kottapalli; Viola Allaj; Marissa Mattar; Natasha Rekhtman; Joao B Xavier; Linas Mazutis; John T Poirier; Charles M Rudin; Dana Pe'er; Joan Massagué
Journal:  Nat Med       Date:  2020-02-10       Impact factor: 53.440

6.  Single-cell genomics identifies cell type-specific molecular changes in autism.

Authors:  Dmitry Velmeshev; Lucas Schirmer; Diane Jung; Maximilian Haeussler; Yonatan Perez; Simone Mayer; Aparna Bhaduri; Nitasha Goyal; David H Rowitch; Arnold R Kriegstein
Journal:  Science       Date:  2019-05-17       Impact factor: 47.728

7.  Mapping human development at single-cell resolution.

Authors:  Sam Behjati; Susan Lindsay; Sarah A Teichmann; Muzlifah Haniffa
Journal:  Development       Date:  2018-02-08       Impact factor: 6.868

8.  Modelling human blastocysts by reprogramming fibroblasts into iBlastoids.

Authors:  Xiaodong Liu; Jia Ping Tan; Jan Schröder; Asma Aberkane; John F Ouyang; Monika Mohenska; Sue Mei Lim; Yu B Y Sun; Joseph Chen; Guizhi Sun; Yichen Zhou; Daniel Poppe; Ryan Lister; Amander T Clark; Owen J L Rackham; Jennifer Zenker; Jose M Polo
Journal:  Nature       Date:  2021-03-17       Impact factor: 69.504

9.  Blastocyst-like structures generated from human pluripotent stem cells.

Authors:  Leqian Yu; Yulei Wei; Jialei Duan; Daniel A Schmitz; Masahiro Sakurai; Lei Wang; Kunhua Wang; Shuhua Zhao; Gary C Hon; Jun Wu
Journal:  Nature       Date:  2021-03-17       Impact factor: 69.504

10.  Childhood cerebellar tumours mirror conserved fetal transcriptional programs.

Authors:  Maria C Vladoiu; Ibrahim El-Hamamy; Laura K Donovan; Nada Jabado; Lincoln Stein; Michael D Taylor; Hamza Farooq; Borja L Holgado; Yogi Sundaravadanam; Vijay Ramaswamy; Liam D Hendrikse; Sachin Kumar; Stephen C Mack; John J Y Lee; Vernon Fong; Kyle Juraschka; David Przelicki; Antony Michealraj; Patryk Skowron; Betty Luu; Hiromichi Suzuki; A Sorana Morrissy; Florence M G Cavalli; Livia Garzia; Craig Daniels; Xiaochong Wu; Maleeha A Qazi; Sheila K Singh; Jennifer A Chan; Marco A Marra; David Malkin; Peter Dirks; Lawrence Heisler; Trevor Pugh; Karen Ng; Faiyaz Notta; Eric M Thompson; Claudia L Kleinman; Alexandra L Joyner
Journal:  Nature       Date:  2019-05-01       Impact factor: 49.962

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  19 in total

1.  High-Throughput, Comprehensive Single-Cell Proteomic Analysis of Xenopus laevis Embryos at the 50-Cell Stage Using a Microplate-Based MICROFASP System.

Authors:  Zhenbin Zhang; Kyle M Dubiak; Evgenia Shishkova; Paul W Huber; Joshua J Coon; Norman J Dovichi
Journal:  Anal Chem       Date:  2022-02-10       Impact factor: 6.986

Review 2.  What is a cell type and how to define it?

Authors:  Hongkui Zeng
Journal:  Cell       Date:  2022-07-21       Impact factor: 66.850

3.  The need for a standard for informed consent for collection of human fetal material.

Authors:  Roger A Barker; Gerard J Boer; Elena Cattaneo; R Alta Charo; Susana M Chuva de Sousa Lopes; Yali Cong; Misao Fujita; Steven Goldman; Göran Hermerén; Insoo Hyun; Steven Lisgo; Anne E Rosser; Eric Anthony; Olle Lindvall
Journal:  Stem Cell Reports       Date:  2022-06-14       Impact factor: 7.294

4.  Toward a unified information framework for cell atlas assembly.

Authors:  Sijie Chen; Yanting Luo; Haoxiang Gao; Fanhong Li; Jiaqi Li; Yixin Chen; Renke You; Hairong Lv; Kui Hua; Rui Jiang; Xuegong Zhang
Journal:  Natl Sci Rev       Date:  2021-09-27       Impact factor: 23.178

Review 5.  Generation and characterization of hair-bearing skin organoids from human pluripotent stem cells.

Authors:  Wouter H van der Valk; Sara A Serdy; CiCi Deakin; Jiyoon Lee; Jin Kim; Anh Phuong Le; Karl R Koehler
Journal:  Nat Protoc       Date:  2022-03-23       Impact factor: 17.021

6.  ConsensusPathDB 2022: molecular interactions update as a resource for network biology.

Authors:  Atanas Kamburov; Ralf Herwig
Journal:  Nucleic Acids Res       Date:  2022-01-07       Impact factor: 16.971

Review 7.  Redefining intestinal immunity with single-cell transcriptomics.

Authors:  Kylie Renee James; Rasa Elmentaite; Sarah Amalia Teichmann; Georgina Louise Hold
Journal:  Mucosal Immunol       Date:  2021-11-30       Impact factor: 8.701

8.  Single-cell RNA-sequencing analysis of the ciliary epithelium and contiguous tissues in the mouse eye.

Authors:  J C Youkilis; S Bassnett
Journal:  Exp Eye Res       Date:  2021-10-28       Impact factor: 3.467

Review 9.  Towards Tabula Gallus.

Authors:  Masahito Yamagata
Journal:  Int J Mol Sci       Date:  2022-01-06       Impact factor: 5.923

10.  Discover immunotherapy biomarkers from single-cell cytometry data.

Authors:  Beibei Ru; Peng Jiang
Journal:  Patterns (N Y)       Date:  2021-12-10
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