To cite Seurat in publications, please use:

Hao Y, Stuart T, Kowalski MH, Choudhary S, Hoffman P, Hartman A, Srivastava A, Molla G, Madad S, Fernandez-Granda C, Satija R (2023). “Dictionary learning for integrative, multimodal and scalable single-cell analysis.” Nature Biotechnology. doi:10.1038/s41587-023-01767-y, https://doi.org/10.1038/s41587-023-01767-y.

Hao Y, Hao S, Andersen-Nissen E, III WMM, Zheng S, Butler A, Lee MJ, Wilk AJ, Darby C, Zagar M, Hoffman P, Stoeckius M, Papalexi E, Mimitou EP, Jain J, Srivastava A, Stuart T, Fleming LB, Yeung B, Rogers AJ, McElrath JM, Blish CA, Gottardo R, Smibert P, Satija R (2021). “Integrated analysis of multimodal single-cell data.” Cell. doi:10.1016/j.cell.2021.04.048, https://doi.org/10.1016/j.cell.2021.04.048.

Stuart T, Butler A, Hoffman P, Hafemeister C, Papalexi E, III WMM, Hao Y, Stoeckius M, Smibert P, Satija R (2019). “Comprehensive Integration of Single-Cell Data.” Cell, 177, 1888-1902. doi:10.1016/j.cell.2019.05.031, https://doi.org/10.1016/j.cell.2019.05.031.

Butler A, Hoffman P, Smibert P, Papalexi E, Satija R (2018). “Integrating single-cell transcriptomic data across different conditions, technologies, and species.” Nature Biotechnology, 36, 411-420. doi:10.1038/nbt.4096, https://doi.org/10.1038/nbt.4096.

Satija R, Farrell JA, Gennert D, Schier AF, Regev A (2015). “Spatial reconstruction of single-cell gene expression data.” Nature Biotechnology, 33, 495-502. doi:10.1038/nbt.3192, https://doi.org/10.1038/nbt.3192.

Corresponding BibTeX entries:

  @Article{,
    author = {Yuhan Hao and Tim Stuart and Madeline H Kowalski and
      Saket Choudhary and Paul Hoffman and Austin Hartman and Avi
      Srivastava and Gesmira Molla and Shaista Madad and Carlos
      Fernandez-Granda and Rahul Satija},
    title = {Dictionary learning for integrative, multimodal and
      scalable single-cell analysis},
    journal = {Nature Biotechnology},
    year = {2023},
    doi = {10.1038/s41587-023-01767-y},
    url = {https://doi.org/10.1038/s41587-023-01767-y},
  }

  @Article{,
    author = {Yuhan Hao and Stephanie Hao and Erica Andersen-Nissen and
      William M. Mauck III and Shiwei Zheng and Andrew Butler and
      Maddie J. Lee and Aaron J. Wilk and Charlotte Darby and Michael
      Zagar and Paul Hoffman and Marlon Stoeckius and Efthymia Papalexi
      and Eleni P. Mimitou and Jaison Jain and Avi Srivastava and Tim
      Stuart and Lamar B. Fleming and Bertrand Yeung and Angela J.
      Rogers and Juliana M. McElrath and Catherine A. Blish and Raphael
      Gottardo and Peter Smibert and Rahul Satija},
    title = {Integrated analysis of multimodal single-cell data},
    journal = {Cell},
    year = {2021},
    doi = {10.1016/j.cell.2021.04.048},
    url = {https://doi.org/10.1016/j.cell.2021.04.048},
  }

  @Article{,
    author = {Tim Stuart and Andrew Butler and Paul Hoffman and
      Christoph Hafemeister and Efthymia Papalexi and William M Mauck
      III and Yuhan Hao and Marlon Stoeckius and Peter Smibert and
      Rahul Satija},
    title = {Comprehensive Integration of Single-Cell Data},
    journal = {Cell},
    year = {2019},
    volume = {177},
    pages = {1888-1902},
    doi = {10.1016/j.cell.2019.05.031},
    url = {https://doi.org/10.1016/j.cell.2019.05.031},
  }

  @Article{,
    author = {Andrew Butler and Paul Hoffman and Peter Smibert and
      Efthymia Papalexi and Rahul Satija},
    title = {Integrating single-cell transcriptomic data across
      different conditions, technologies, and species},
    journal = {Nature Biotechnology},
    year = {2018},
    volume = {36},
    pages = {411-420},
    doi = {10.1038/nbt.4096},
    url = {https://doi.org/10.1038/nbt.4096},
  }

  @Article{,
    author = {Rahul Satija and Jeffrey A Farrell and David Gennert and
      Alexander F Schier and Aviv Regev},
    title = {Spatial reconstruction of single-cell gene expression
      data},
    journal = {Nature Biotechnology},
    year = {2015},
    volume = {33},
    pages = {495-502},
    doi = {10.1038/nbt.3192},
    url = {https://doi.org/10.1038/nbt.3192},
  }