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NBAtlas : a harmonized single-cell transcriptomic reference atlas of human neuroblastoma tumors

Noah Bonine (UGent) , Vittorio Zanzani (UGent) , Annelies Van Hemelryk (UGent) , Bavo Vanneste (UGent) , Christian Zwicker (UGent) , Tinne Thoné (UGent) , Sofie Roelandt (UGent) , Sarah-Lee Bekaert (UGent) , Jan Koster, Isabelle Janoueix-Lerosey, et al.
(2024) CELL REPORTS. 43(10).
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Abstract
Neuroblastoma, a rare embryonic tumor arising from neural crest development, is responsible for 15% of pediatric cancer-related deaths. Recently, several single-cell transcriptome studies were performed on neuroblastoma patient samples to investigate the cell of origin and tumor heterogeneity. However, these individual studies involved a small number of tumors and cells, limiting the conclusions that could be drawn. To overcome this limitation, we integrated seven single-cell or single-nucleus datasets into a harmonized cell atlas covering 362,991 cells across 61 patients. We use this atlas to decipher the transcriptional landscape of neuroblastoma at single-cell resolution, revealing associations between transcriptomic profiles and clinical outcomes within the tumor compartment. In addition, we characterize the complex immune-cell landscape and uncover considerable heterogeneity among tumor-associated macrophages. Finally, we showcase the utility of our atlas as a resource by expanding it with additional data and using it as a reference for data-driven cell-type annotation.
Keywords
DISEASE-ASSOCIATED MICROGLIA, DENDRITIC CELLS, GENE-EXPRESSION, MACROPHAGES, SEQ, REVEALS, MODEL, PHENOTYPES, LANDSCAPE, MARKERS

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MLA
Bonine, Noah, et al. “NBAtlas : A Harmonized Single-Cell Transcriptomic Reference Atlas of Human Neuroblastoma Tumors.” CELL REPORTS, vol. 43, no. 10, 2024, doi:10.1016/j.celrep.2024.114804.
APA
Bonine, N., Zanzani, V., Van Hemelryk, A., Vanneste, B., Zwicker, C., Thoné, T., … De Preter, K. (2024). NBAtlas : a harmonized single-cell transcriptomic reference atlas of human neuroblastoma tumors. CELL REPORTS, 43(10). https://doi.org/10.1016/j.celrep.2024.114804
Chicago author-date
Bonine, Noah, Vittorio Zanzani, Annelies Van Hemelryk, Bavo Vanneste, Christian Zwicker, Tinne Thoné, Sofie Roelandt, et al. 2024. “NBAtlas : A Harmonized Single-Cell Transcriptomic Reference Atlas of Human Neuroblastoma Tumors.” CELL REPORTS 43 (10). https://doi.org/10.1016/j.celrep.2024.114804.
Chicago author-date (all authors)
Bonine, Noah, Vittorio Zanzani, Annelies Van Hemelryk, Bavo Vanneste, Christian Zwicker, Tinne Thoné, Sofie Roelandt, Sarah-Lee Bekaert, Jan Koster, Isabelle Janoueix-Lerosey, Cécile Thirant, Stéphane Van Haver, Stephen Roberts, Liselot Mus, Bram De Wilde, Nadine Van Roy, Celine Everaert, Franki Speleman, Vanessa Vermeirssen, Charlotte Scott, and Katleen De Preter. 2024. “NBAtlas : A Harmonized Single-Cell Transcriptomic Reference Atlas of Human Neuroblastoma Tumors.” CELL REPORTS 43 (10). doi:10.1016/j.celrep.2024.114804.
Vancouver
1.
Bonine N, Zanzani V, Van Hemelryk A, Vanneste B, Zwicker C, Thoné T, et al. NBAtlas : a harmonized single-cell transcriptomic reference atlas of human neuroblastoma tumors. CELL REPORTS. 2024;43(10).
IEEE
[1]
N. Bonine et al., “NBAtlas : a harmonized single-cell transcriptomic reference atlas of human neuroblastoma tumors,” CELL REPORTS, vol. 43, no. 10, 2024.
@article{01JAYTHXK4S1Y6KAWKTEPZ1E2W,
  abstract     = {{Neuroblastoma, a rare embryonic tumor arising from neural crest development, is responsible for 15% of pediatric cancer-related deaths. Recently, several single-cell transcriptome studies were performed on neuroblastoma patient samples to investigate the cell of origin and tumor heterogeneity. However, these individual studies involved a small number of tumors and cells, limiting the conclusions that could be drawn. To overcome this limitation, we integrated seven single-cell or single-nucleus datasets into a harmonized cell atlas covering 362,991 cells across 61 patients. We use this atlas to decipher the transcriptional landscape of neuroblastoma at single-cell resolution, revealing associations between transcriptomic profiles and clinical outcomes within the tumor compartment. In addition, we characterize the complex immune-cell landscape and uncover considerable heterogeneity among tumor-associated macrophages. Finally, we showcase the utility of our atlas as a resource by expanding it with additional data and using it as a reference for data-driven cell-type annotation.}},
  articleno    = {{114804}},
  author       = {{Bonine, Noah and Zanzani, Vittorio and Van Hemelryk, Annelies and Vanneste, Bavo and Zwicker, Christian and Thoné, Tinne and Roelandt, Sofie and Bekaert, Sarah-Lee and Koster, Jan and Janoueix-Lerosey, Isabelle and Thirant, Cécile and Van Haver, Stéphane and Roberts, Stephen and Mus, Liselot and De Wilde, Bram and Van Roy, Nadine and Everaert, Celine and Speleman, Franki and Vermeirssen, Vanessa and Scott, Charlotte and De Preter, Katleen}},
  issn         = {{2639-1856}},
  journal      = {{CELL REPORTS}},
  keywords     = {{DISEASE-ASSOCIATED MICROGLIA,DENDRITIC CELLS,GENE-EXPRESSION,MACROPHAGES,SEQ,REVEALS,MODEL,PHENOTYPES,LANDSCAPE,MARKERS}},
  language     = {{eng}},
  number       = {{10}},
  pages        = {{25}},
  title        = {{NBAtlas : a harmonized single-cell transcriptomic reference atlas of human neuroblastoma tumors}},
  url          = {{http://doi.org/10.1016/j.celrep.2024.114804}},
  volume       = {{43}},
  year         = {{2024}},
}
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