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The Human Cell Atlas: from vision to reality

Author

Listed:
  • Orit Rozenblatt-Rosen

    (lead scientist for the Human Cell Atlas Initiative at the Klarman Cell Observatory at the Broad Institute of MIT and Harvard)

  • Michael J. T. Stubbington

    (lead scientist for the Human Cell Atlas Initiative at the Wellcome Trust Sanger Institute)

  • Aviv Regev

    (co-chair of the Human Cell Atlas organizing committee, and at the Klarman Cell Observatory at the Broad Institute of MIT and Harvard
    the Massachusetts Institute of Technology)

  • Sarah A. Teichmann

    (the Massachusetts Institute of Technology
    co-chair of the Human Cell Atlas organizing committee, and at the Wellcome Trust Sanger Institute
    the Cavendish Laboratory)

Abstract

As an ambitious project to map all the cells in the human body gets officially under way, Aviv Regev, Sarah Teichmann and colleagues outline some key challenges.

Suggested Citation

  • Orit Rozenblatt-Rosen & Michael J. T. Stubbington & Aviv Regev & Sarah A. Teichmann, 2017. "The Human Cell Atlas: from vision to reality," Nature, Nature, vol. 550(7677), pages 451-453, October.
    • Handle: RePEc:nat:nature:v:550:y:2017:i:7677:d:10.1038_550451a
    DOI: 10.1038/550451a
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    2. Christoph Ziegenhain & Rickard Sandberg, 2021. "BAMboozle removes genetic variation from human sequence data for open data sharing," Nature Communications, Nature, vol. 12(1), pages 1-10, December.
    3. Abhishek Nagaraj, 2022. "T he P rivate I mpact of P ublic D ata: L andsat S atellite M aps I ncreased G old D iscoveries and E ncouraged E ntry," Management Science, INFORMS, vol. 68(1), pages 564-582, January.
    4. Katharina T. Schmid & Barbara Höllbacher & Cristiana Cruceanu & Anika Böttcher & Heiko Lickert & Elisabeth B. Binder & Fabian J. Theis & Matthias Heinig, 2021. "scPower accelerates and optimizes the design of multi-sample single cell transcriptomic studies," Nature Communications, Nature, vol. 12(1), pages 1-18, December.
    5. Luisa Santus & Maria Sopena-Rios & Raquel García-Pérez & Aaron E. Lin & Gordon C. Adams & Kayla G. Barnes & Katherine J. Siddle & Shirlee Wohl & Ferran Reverter & John L. Rinn & Richard S. Bennett & L, 2023. "Single-cell profiling of lncRNA expression during Ebola virus infection in rhesus macaques," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
    6. Ziye Xu & Tianyu Zhang & Hongyu Chen & Yuyi Zhu & Yuexiao Lv & Shunji Zhang & Jiaye Chen & Haide Chen & Lili Yang & Weiqin Jiang & Shengyu Ni & Fangru Lu & Zhaolun Wang & Hao Yang & Ling Dong & Feng C, 2023. "High-throughput single nucleus total RNA sequencing of formalin-fixed paraffin-embedded tissues by snRandom-seq," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
    7. Amir Alavi & Ziv Bar-Joseph, 2020. "Iterative point set registration for aligning scRNA-seq data," PLOS Computational Biology, Public Library of Science, vol. 16(10), pages 1-21, October.
    8. Joyce B. Kang & Aparna Nathan & Kathryn Weinand & Fan Zhang & Nghia Millard & Laurie Rumker & D. Branch Moody & Ilya Korsunsky & Soumya Raychaudhuri, 2021. "Efficient and precise single-cell reference atlas mapping with Symphony," Nature Communications, Nature, vol. 12(1), pages 1-21, December.
    9. Ajita Shree & Musale Krushna Pavan & Hamim Zafar, 2023. "scDREAMER for atlas-level integration of single-cell datasets using deep generative model paired with adversarial classifier," Nature Communications, Nature, vol. 14(1), pages 1-19, December.
    10. Erping Long & Montserrat García-Closas & Stephen J. Chanock & M. Constanza Camargo & Nicholas E. Banovich & Jiyeon Choi, 2022. "The case for increasing diversity in tissue-based functional genomics datasets to understand human disease susceptibility," Nature Communications, Nature, vol. 13(1), pages 1-4, December.
    11. Qihuang Zhang & Shunzhou Jiang & Amelia Schroeder & Jian Hu & Kejie Li & Baohong Zhang & David Dai & Edward B. Lee & Rui Xiao & Mingyao Li, 2023. "Leveraging spatial transcriptomics data to recover cell locations in single-cell RNA-seq with CeLEry," Nature Communications, Nature, vol. 14(1), pages 1-19, December.
    12. Rongbo Shen & Lin Liu & Zihan Wu & Ying Zhang & Zhiyuan Yuan & Junfu Guo & Fan Yang & Chao Zhang & Bichao Chen & Wanwan Feng & Chao Liu & Jing Guo & Guozhen Fan & Yong Zhang & Yuxiang Li & Xun Xu & Ji, 2022. "Spatial-ID: a cell typing method for spatially resolved transcriptomics via transfer learning and spatial embedding," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
    13. Rui Hong & Yusuke Koga & Shruthi Bandyadka & Anastasia Leshchyk & Yichen Wang & Vidya Akavoor & Xinyun Cao & Irzam Sarfraz & Zhe Wang & Salam Alabdullatif & Frederick Jansen & Masanao Yajima & W. Evan, 2022. "Comprehensive generation, visualization, and reporting of quality control metrics for single-cell RNA sequencing data," Nature Communications, Nature, vol. 13(1), pages 1-9, December.
    14. Licai Huang & Paul Little & Jeroen R. Huyghe & Qian Shi & Tabitha A. Harrison & Greg Yothers & Thomas J. George & Ulrike Peters & Andrew T. Chan & Polly A. Newcomb & Wei Sun, 2021. "A Statistical Method for Association Analysis of Cell Type Compositions," Statistics in Biosciences, Springer;International Chinese Statistical Association, vol. 13(3), pages 373-385, December.
    15. Chang Hoon Cho & Ilana Vasilisa Deyneko & Dylann Cordova-Martinez & Juan Vazquez & Anne S. Maguire & Jenny R. Diaz & Abigail U. Carbonell & Jaafar O. Tindi & Min-Hui Cui & Roman Fleysher & Sophie Molh, 2023. "ANKS1B encoded AIDA-1 regulates social behaviors by controlling oligodendrocyte function," Nature Communications, Nature, vol. 14(1), pages 1-20, December.
    16. Yingxin Lin & Yue Cao & Elijah Willie & Ellis Patrick & Jean Y. H. Yang, 2023. "Atlas-scale single-cell multi-sample multi-condition data integration using scMerge2," Nature Communications, Nature, vol. 14(1), pages 1-13, December.
    17. Lei Xiong & Kang Tian & Yuzhe Li & Weixi Ning & Xin Gao & Qiangfeng Cliff Zhang, 2022. "Online single-cell data integration through projecting heterogeneous datasets into a common cell-embedding space," Nature Communications, Nature, vol. 13(1), pages 1-17, December.

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