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2020-Zanotelli et al-preprint

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mleipold

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Posts: 5792

Joined: Fri Nov 01, 2013 5:30 pm

Location: Stanford HIMC, CA, USA

Post Mon Jul 27, 2020 4:10 pm

2020-Zanotelli et al-preprint

"A quantitative analysis of the interplay of environment, neighborhood and cell state in 3D spheroids"
Vito RT Zanotelli, Matthias Leutenegger, Xiao-Kang Lun, Fanny Georgi, Natalie de Souza, Bernd Bodenmiller
bioRxiv, posted July 24, 2020
https://doi.org/10.1101/2020.07.24.219659

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

- no IMC dataset accession given
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vitozan

Participant

Posts: 6

Joined: Mon Sep 11, 2017 6:56 pm

Post Fri Nov 13, 2020 5:42 pm

Re: 2020-Zanotelli et al-preprint

Hi community,

I have now prepared the data upload for this publication.

https://zenodo.org/record/4055781

This contains all raw data used as well as a snakemake workflow to run the complete analysis from this raw data: https://zenodo.org/record/4071862

I would be particularly interested for feedback about the processed IMC imaging datasets, eg if the format is acceptable and the description sufficient:
- 4 cellline experiment: http://doi.org/10.5281/zenodo.3991942
- Overexpression experiment: http://doi.org/10.5281/zenodo.4271917

Cheers, Vito
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mleipold

Guru

Posts: 5792

Joined: Fri Nov 01, 2013 5:30 pm

Location: Stanford HIMC, CA, USA

Post Tue Jan 12, 2021 4:06 pm

Re: 2020-Zanotelli et al-preprint

Now published:

Mol Syst Biol. 2020, 16, e9798
https://doi.org/10.15252/msb.20209798

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