Correlating NanoSIMS images with ultra-high resolution EM images in Look@NanoSIMS

Supplement of the study by Spataro et al. (2022) describes how to perform correlative image analysis in Look@NanoSIMS. This repository contains files used as an example in that analysis.

* Rat7SNR_21.tif = ultra-high resolution EM image (4096 x 3072 pixels)
* Spataro-Sept-2018_3.im.zip = zipped raw data produced by NanoSIMS 50L (256 x 256 pixels)
* Spataro-Sept-2018_3.zip = zipped folder containing data generated by Look@NanoSIMS

To start the analysis, download all files to a folder on your computer (preferably in the same folder) and unzip the file Spataro-Sept-2018_3.zip. The latter step will create a folder Spataro-Sept-2018_3 containing files generated by Look@NanoSIMS when analysing data in Spataro-Sept-2018_3.im.zip and Rat7SNR_21.tif. The files include information about the alignment of individual planes (xyalign.mat), coordinates of the pairs of reference points in the EM and NanoSIMS images (points_10x.mat), regions of interest defined for the resampled (cells_10x.mat) and original NanoSIMS data (cells_1x.mat), and Look@NanoSIMS preferences saved for the resampled (prefs_10x.mat) and original (prefs_1x.mat and prefs.mat) NanoSIMS data. You can use these files to reproduce the analysis described in the Supplement of Spataro et al. (2022).

Reference:

S. Spataro, B. Maco, S. Escrig, L. Jensen, L. Polerecky, G. Knott, A. Meibom, and B. L. Schneider (2022). Alpha-synuclein-induced changes to neuronal metabolism revealed by stable isotope labeling and ultra-high-resolution imaging.