Citation

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Citation#

If you use UniVI, please cite the article:

Ashford AJ, Enright T, Somers J, Nikolova O, Demir E. Unifying multimodal single-cell data with a mixture-of-experts β-variational autoencoder framework. Genome Research 36(10): 2068–2090 (2026). doi:10.1101/gr.281431.125

@article{Ashford2026UniVI,
  title   = {Unifying multimodal single-cell data with a mixture-of-experts
             {$\beta$}-variational autoencoder framework},
  author  = {Ashford, Andrew J. and Enright, Trevor and Somers, Julia
             and Nikolova, Olga and Demir, Emek},
  journal = {Genome Research},
  year    = {2026},
  volume  = {36},
  number  = {10},
  pages   = {2068--2090},
  doi     = {10.1101/gr.281431.125},
  url     = {https://doi.org/10.1101/gr.281431.125}
}

GitHub’s Cite this repository button (from CITATION.cff) gives the same reference in other formats. When you rely on a specific software version, also report it (univi.__version__).

Datasets#

If you use the datasets from univi.datasets, please also cite the studies that generated them:

  • Hao Y et al. 2021. Integrated analysis of multimodal single-cell data. Cell 184: 3573–3587.

  • 10x Genomics. PBMC single-cell Multiome ATAC + Gene Expression datasets (Cell Ranger ARC).

  • Ding J et al. 2020. Systematic comparison of single-cell and single-nucleus RNA-sequencing methods. Nat Biotechnol 38: 737–746.

  • Satpathy AT et al. 2019. Massively parallel single-cell chromatin landscapes of human immune cell development and intratumoral T cell exhaustion. Nat Biotechnol 37: 925–936.

  • Swanson E et al. 2021. Simultaneous trimodal single-cell measurement of transcripts, epitopes, and chromatin accessibility using TEA-seq. eLife 10: e63632.

  • Knorr K et al. 2023. Systematic evaluation of AML-associated antigens identifies anti-U5 SNRNP200 therapeutic antibodies for the treatment of acute myeloid leukemia. Nat Cancer 4: 1675–1692.

  • van Galen P et al. 2019. Single-cell RNA-seq reveals AML hierarchies relevant to disease progression and immunity. Cell 176: 1265–1281.

  • Demaree B et al. 2021. Joint profiling of DNA and proteins in single cells to dissect genotype–phenotype associations in leukemia. Nat Commun 12: 1583.

  • Ma S et al. 2020. Chromatin potential identified by shared single-cell profiling of RNA and chromatin. Cell 183: 1103–1116.

  • Argelaguet R et al. 2019. Multi-omics profiling of mouse gastrulation at single-cell resolution. Nature 576: 487–491.

Figures#

Figures shown on the reproduction pages are from the article and its Supplemental Material, © 2026 Ashford et al., published by Cold Spring Harbor Laboratory Press under CC BY 4.0.

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