Citations

If you use Nano-Org, its analytical tools, or datasets obtained through the platform in your research, please cite the relevant publications listed below. Citations help support the continued development of Nano-Org and enable others to reproduce and build upon your work.

Citing Nano-Org and Similarity Analysis

If you use the Nano-Org platform, browse datasets through the databank, or make use of Nano-Org's nanoscale similarity search capabilities, please cite:

Shirgill S, Nieves DJ, Pike JA, Ahmed MA, Abbott H, Baragilly MHH, Savoye K, Worboys JD, Hazime KS, Bruggeman E, Garcia A, Williamson DJ, Rubin-Delanchy P, Peters R, Davis DM, Henriques R, Lee SF, Owen DM. Nano-org, a functional resource for single-molecule localisation microscopy data. Nature Communications. 2025;16(1):8674.

DOI: 10.1038/s41467-025-63674-x
BibTeX 
                            
                                @article{Shirgill2025,
                                author = {Shirgill, S. and Nieves, D. J. and Pike, J. A. and Ahmed, M. A.
                                and Abbott, H. and Baragilly, M. H. H. and Savoye, K. and Worboys, J. D.
                                and Hazime, K. S. and Bruggeman, E. and Garcia, A. and Williamson, D. J.
                                and Rubin-Delanchy, P. and Peters, R. and Davis, D. M. and Henriques, R.
                                and Lee, S. F. and Owen, D. M.},
                                title = {Nano-org, a functional resource for single-molecule localisation microscopy data},
                                journal = {Nature Communications},
                                year = {2025},
                                volume = {16},
                                number = {1},
                                pages = {8674},
                                doi = {10.1038/s41467-025-63674-x}
                                }

Citing Contrastive Learning Analyses

If you use Nano-Org's contrastive learning tools, embeddings, UMAP visualisations, or perform nanoscale spatial-omics analyses using the platform, please also cite:

Shirgill S, Jensen LG, Nieves DJ, Wales MC, Kaminer A, Savoye K, Peters R, Heilemann M, Henriques R, Lee SF, Rubin-Delanchy P, Owen DM. Nanoscale spatial-omics via contrastive embedding of single-molecule localisation data. bioRxiv. 2025.

DOI: 10.1101/2025.10.07.679170
BibTeX 
                            
                                @article{Shirgill2025Contrastive,
                                author = {Shirgill, S. and Jensen, L. G. and Nieves, D. J. and Wales, M. C.
                                and Kaminer, A. and Savoye, K. and Peters, R. and Heilemann, M.
                                and Henriques, R. and Lee, S. F. and Rubin-Delanchy, P. and Owen, D. M.},
                                title = {Nanoscale spatial-omics via contrastive embedding of single-molecule localisation data},
                                journal = {bioRxiv},
                                year = {2025},
                                doi = {10.1101/2025.10.07.679170}
                                }

Citing SynthMLM

If you generate, analyse, or publish synthetic localisation microscopy data using SynthMLM, please also cite:

Gall L, Shirgill S, Abbott H, Nieves DJ, Owen DM. SynthMLM: A framework for interpretable analysis and synthetic localisation data generation for SMLM. bioRxiv. 2026.

DOI: 10.64898/2026.08.12.743882
BibTeX 
                            
                                @article{Gall2026SynthMLM,
                                author = {Gall, Louis and Shirgill, Sandeep and Abbott, Helen
                                and Nieves, Daniel J. and Owen, Dylan M.},
                                title = {SynthMLM: A framework for interpretable analysis and synthetic localisation data generation for SMLM},
                                journal = {bioRxiv},
                                year = {2026},
                                doi = {10.64898/2026.08.12.743882}
                                }

Citing Datasets

When using datasets discovered through Nano-Org, please also cite the original dataset publication, dataset DOI, and dataset creators where available. Citation information can typically be found within the dataset's metadata.

If a dataset has not yet been associated with a publication, please acknowledge the dataset creators in accordance with any attribution information provided by the uploader.

Acknowledgements

We greatly appreciate citations to Nano-Org and its associated tools. These citations help demonstrate the scientific impact of the platform and support its continued development as a resource for the single-molecule localisation microscopy community.