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2020-Catena et al-preprint

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mleipold

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Posts: 5796

Joined: Fri Nov 01, 2013 5:30 pm

Location: Stanford HIMC, CA, USA

Post Tue May 26, 2020 10:26 pm

2020-Catena et al-preprint

"Highly multiplexed molecular and cellular mapping of breast cancer tissue in three dimensions using mass tomography"
Raul Catena, Alaz Oezcan, Laura Kuett, Alex Pluess, Peter Schraml, Holger Moch, IMAXT Consortium, Bernd Bodenmiller
bioRxiv, posted May 26, 2020
https://doi.org/10.1101/2020.05.24.113571

- will update when/if this is peer-reviewed and published

- Data links at the bottom here:
http://www.bodenmillerlab.com/catena_et ... omography/
- though it looks like the 3D tsv dataset link is broken/missing


"Our MT approach is based on the serial sectioning of a punched tissue cylinder (1 mm diameter) from a paraffin block of archival tissue and subsequent 3D reconstruction from 2D IMC data acquired from each individual serial section (Fig. 1A). A major hurdle to achieve 3D tissue reconstruction is the generation of deformation-free sections from paraffin-embedded tissues. [..] After preparation of 156 consecutive slices from the same tissue, we stained the sections with a breast cancer-centric panel of antibodies."
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mleipold

Guru

Posts: 5796

Joined: Fri Nov 01, 2013 5:30 pm

Location: Stanford HIMC, CA, USA

Post Mon Jan 10, 2022 3:27 pm

Re: 2020-Catena et al-preprint

Now published:

Nat Cancer. 2021
https://doi.org/10.1038/s43018-021-00301-w

"Data availability

All the data required for the 3D models from this study including IMC high-dimensional tiff images, single-cell masks and single-cell data are available at https://doi.org/10.5281/zenodo.4752030. "

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