Imaging Mass Cytometry file size and maximum area to ablate

[vmotta]

Hello,

I have been ablating tissue ROI of about 1mm2.

However, I have a user that would like to ablate the following ROIs in one slide, i.e one .mcd file

1. 2800 um x 1800 um
2. 1800 um x 1500 um
3. 1500um x 2000 um
4. 2500 um x 1300 um

Has anyone experienced any limitation with the .mcd file size, analysis of the imaging or cell segmentation for large files?

The largest .mcd file I have produced so far is:
1. 1500 um x 800um
2. 1500 um x 800um
3 1800 um x 800 um

A total of 3.8 mm2 and a file size of 863Mb.

Based on my previous file, I am expecting a total of 14 mm2 are ablated and file size of 3.18Gb

I am wondering if it would work better to generate individual .mcd files for each ROI.

Thanks

Vinicius

[ssivajothi]

Hi Vinicius,

I have run multiple ROIs on a single tissue, ranging from 500x500 to 2500x2500 and have not had any issue with the MCD files.
I have also performed a 1500x10,000 ablation over a few days and it has been fine. I don't see the benefit of having multiple .mcd files. You can just set up the multiple ROIs on one file, double check your gas tanks and walk away.

Best,
Santhosh

[vmotta]

Hi Santhosh,

Thank you for your feedback.

I appreciate your help.

Vinicius