Hello,
I was wondering why there are only 48 unique 'projid' in the file 'all_brain_regions_filt_preprocessed_scanpy_norm.final_noMB.cell_labels.tsv' while the article introducing this ressource states that 427 ROSMAP individuals were included in the study (https://doi.org/10.1016/j.cell.2023.08.039).
Thanks in advance!
Created by Chloe Savignac ChloeSavignac Thanks a lot for explaining, @ChloeSavignac - very helpful! Hi Abby,
Thank you for your answer. I believe the "de Jager snRNAseq" dataset includes 465 participants, as stated in the article:
"To validate our findings, we analyzed a separate large single-nucleus RNA-seq dataset derived from the dorsolateral prefrontal cortex (DLPFC) of 465 ROSMAP study participants (referred to as the De Jager dataset)."
It seems that when the authors refer to 427 participants, they are only considering their DLPFC snRNAseq sample, which is different from the multi-region snRNAseq sample. From some preliminary work I've done with the data, it appears that the multi-region snRNAseq sample (including the prefrontal cortex, entorhinal cortex, hippocampus, mid-temporal cortex, thalamus, and angular cortex) includes only 48 participants.
I thought this information might be useful for others as well! Hi there,
I think the data at syn5240857 is the data that was generated by the authors. I believe they also used some additional existing data from the AD Portal, which is linked in the [resources table included in the paper](https://www.cell.com/cell/fulltext/S0092-8674(23)00973-X?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS009286742300973X%3Fshowall%3Dtrue#secsectitle0100). Specifically, the "de Jager snRNAseq" dataset they link to. That should get you the rest of the data -- if not, I would recommend reaching out to the authors!
Abby