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The Human Cell Atlas: from vision to reality

Citations

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Cited by:

  1. Aiko Sekita & Hiroshi Kawasaki & Ayano Fukushima-Nomura & Kiyoshi Yashiro & Keiji Tanese & Susumu Toshima & Koichi Ashizaki & Tomohiro Miyai & Junshi Yazaki & Atsuo Kobayashi & Shinichi Namba & Tatsuh, 2023. "Multifaceted analysis of cross-tissue transcriptomes reveals phenotype–endotype associations in atopic dermatitis," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
  2. Andrew Jones & Diana Cai & Didong Li & Barbara E. Engelhardt, 2024. "Optimizing the design of spatial genomic studies," Nature Communications, Nature, vol. 15(1), pages 1-10, December.
  3. 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.
  4. Raphael Lutz & Florian Grünschläger & Malte Simon & Mohamed H. S. Awwad & Marcus Bauer & Schayan Yousefian & Niklas Beumer & Lea Jopp-Saile & Anastasia Sedlmeier & Llorenç Solé-Boldo & Bogdan Avanesya, 2024. "Multiple myeloma long-term survivors exhibit sustained immune alterations decades after first-line therapy," Nature Communications, Nature, vol. 15(1), pages 1-18, December.
  5. 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.
  6. 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.
  7. Claudia Ctortecka & Natalie M. Clark & Brian W. Boyle & Anjali Seth & D. R. Mani & Namrata D. Udeshi & Steven A. Carr, 2024. "Automated single-cell proteomics providing sufficient proteome depth to study complex biology beyond cell type classifications," Nature Communications, Nature, vol. 15(1), pages 1-10, December.
  8. Lindsay A. Rutter & Henry Cope & Matthew J. MacKay & Raúl Herranz & Saswati Das & Sergey A. Ponomarev & Sylvain V. Costes & Amber M. Paul & Richard Barker & Deanne M. Taylor & Daniela Bezdan & Nathani, 2024. "Astronaut omics and the impact of space on the human body at scale," Nature Communications, Nature, vol. 15(1), pages 1-13, December.
  9. 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.
  10. 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.
  11. Matthew P. Morrow & Elisabeth Gillespie & Albert Sylvester & Milan R. Amin & Peter C. Belafsky & Simon R. Best & Aaron D. Friedman & Adam M. Klein & David G. Lott & Ted Mau & Randal C. Paniello & Seth, 2025. "DNA immunotherapy for recurrent respiratory papillomatosis (RRP): phase 1/2 study assessing efficacy, safety, and immunogenicity of INO-3107," Nature Communications, Nature, vol. 16(1), pages 1-16, December.
  12. 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.
  13. Emily Kirby & Alexander Bernier & Roderic Guigó & Barbara Wold & Fabiana Arzuaga & Mayumi Kusunose & Ma’n Zawati & Bartha M. Knoppers, 2024. "Data sharing ethics toolkit: The Human Cell Atlas," Nature Communications, Nature, vol. 15(1), pages 1-7, December.
  14. 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.
  15. 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.
  16. 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.
  17. 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.
  18. 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.
  19. Rafael dos Santos Peixoto & Brendan F. Miller & Maigan A. Brusko & Gohta Aihara & Lyla Atta & Manjari Anant & Mark A. Atkinson & Todd M. Brusko & Clive H. Wasserfall & Jean Fan, 2025. "Characterizing cell-type spatial relationships across length scales in spatially resolved omics data," Nature Communications, Nature, vol. 16(1), pages 1-14, December.
  20. 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.
  21. John D. Blair & Austin Hartman & Fides Zenk & Philipp Wahle & Giovanna Brancati & Carol Dalgarno & Barbara Treutlein & Rahul Satija, 2025. "Phospho-seq: integrated, multi-modal profiling of intracellular protein dynamics in single cells," Nature Communications, Nature, vol. 16(1), pages 1-19, December.
  22. 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.
  23. 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.
  24. 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.
  25. Shuo Feng & Liangfeng Huang & Anna Vathrakokoili Pournara & Ziliang Huang & Xinlu Yang & Yongjian Zhang & Alvis Brazma & Ming Shi & Irene Papatheodorou & Zhichao Miao, 2024. "Alleviating batch effects in cell type deconvolution with SCCAF-D," Nature Communications, Nature, vol. 15(1), pages 1-14, December.
  26. 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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