Processing proteomics data
In relevance to my research, I've been looking for proteomics data (control vs. diabetic) and I found a dataset in this article "Diabetes causes marked inhibition of mitochondrial metabolism in pancreatic β-cells" .
I am actually looking for the data that was used for creating figure 1. I checked the PRIDE dataset shared in the paper (https://www.ebi.ac.uk/pride/archive/projects/PXD012979) and I could find the raw files but I was not sure where to look for the processed data and how to generate figure 1 (added below).
Could someone please help me with this? I am not sure how to get started with this.
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Cross-posted after a few days of inactivity here: https://bioinformatics.stackexchange.com/questions/18850/processing-proteomics-data