FixNCut: Single-cell genomics through reversible tissue fixation and dissociation

Jimenez-Gracia, L.; Marchese, D.; Nieto, J. C.; Caratu, G.; Melon-Ardanaz, E.; Gudino, V.; Roth, S.; Wise, K.; Ryan, N. K.; Jensen, K. B.; Hernando-Momblona, X.; Bernardes, J. P.; Tran, F.; Sievers, L. K.; Schreiber, S.; van den Berge, M.; Kole, T.; van der Velde, P. L.; Nawijn, M. C.; Rosenstiel, P.; Batlle, E.; Butler, L. M.; Parish, I. A.; Plummer, J. T.; Gut, I. G.; Salas, A.; Heyn, H.; Martelotto, L. G.

doi:10.1101/2023.06.16.545221

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bioRxiv · 10.1101/2023.06.16.545221

FixNCut: Single-cell genomics through reversible tissue fixation and dissociation

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Abstract

The use of single-cell technologies for clinical applications requires disconnecting sampling from downstream processing steps. Early sample preservation can further increase robustness and reproducibility by avoiding artifacts introduced during specimen handling. We present FixNCut, a methodology for the reversible fixation of tissue followed by dissociation that overcomes current limitations. We applied FixNCut to human and mouse tissues to demonstrate the preservation of RNA integrity, sequencing library complexity, and cellular composition, while diminishing stress-related artifacts. Besides single-cell RNA sequencing, FixNCut is compatible with multiple single-cell and spatial technologies, making it a versatile tool for robust and flexible study designs.

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Jimenez-Gracia, L., Marchese, D., Nieto, J. C., Caratu, G., Melon-Ardanaz, E., Gudino, V., Roth, S., Wise, K., Ryan, N. K., Jensen, K. B., Hernando-Momblona, X., Bernardes, J. P., Tran, F., Sievers, L. K., Schreiber, S., van den Berge, M., Kole, T., van der Velde, P. L., Nawijn, M. C., Rosenstiel, P., Batlle, E., Butler, L. M., Parish, I. A., Plummer, J. T., Gut, I. G., Salas, A., Heyn, H., Martelotto, L. G.. 2023-06-16. FixNCut: Single-cell genomics through reversible tissue fixation and dissociation. https://doi.org/10.1101/2023.06.16.545221

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