I am the Scientific Project Manager for the SEA-AD Consortium. I am posting a community question and answer received via email related to working with SEA-AD data:
Q: “I want to work with your MTG snRNAseq data that is available in your AWS open registry. I was wondering if you all used filtered bc matrices or raw bc matrices for the Gabitto et al. paper”
A: We start from the cellranger filtered matrices. Though we have looked at the unfiltered matrices to check if we were missing anything specific (in the severely affected donor exploration).