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[Feature] Add SIGMA rat brain templates and atlases v2.0 #435

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niksirbi opened this issue Nov 28, 2024 · 1 comment
Open

[Feature] Add SIGMA rat brain templates and atlases v2.0 #435

niksirbi opened this issue Nov 28, 2024 · 1 comment
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enhancement New feature or request new-atlas This relates to adding a new atlas to BrainGlobe

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@niksirbi
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Data on zenodo: https://zenodo.org/records/10635831

There are multiple reference images, of different contrasts and resolutions. For our purposes, the ex-vivo T2* images may be best, as they are of very high resolution, for MRI. (0.09 x 0.09 x 0.09 mm). The provided annotation images seem to come from the Waxholm space atlas (2023), warped onto the SIGMA template.

References:

Barrière, D.A. et al. The SIGMA rat brain templates and atlases for multimodal MRI data analysis and visualization. Nat Commun 10, 5699 (2019). https://doi.org/10.1038/s41467-019-13575-7

Kleven, H. et al. Waxholm Space atlas of the rat brain: a 3D atlas supporting data analysis and integration. Nat Methods 20, 1822–1829 (2023). https://doi.org/10.1038/s41592-023-02034-3

Barrière, D.A. et al. Combination of high-fat/high-fructose diet and low-dose streptozotocin to model long-term type-2 diabetes complications. Sci Rep. 2018 Jan 11;8(1):424. doi: 10.1038/s41598-017-18896-5. PMID: 29323186; PMCID: PMC5765114.

@niksirbi niksirbi added enhancement New feature or request new-atlas This relates to adding a new atlas to BrainGlobe labels Nov 28, 2024
@niksirbi
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In case you are wondering, this is what the ExVivo MRI template image looks like:

SIGMA_exvivo_template

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enhancement New feature or request new-atlas This relates to adding a new atlas to BrainGlobe
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