Dear Synapse and SEA-AD investigators.
Thanks for making this valuable dataset available. If possible I'd like to get your help with understanding how the samples from the SEA-AD were "fused" by individual.
So, we found out that there several biospecimens are from the same individual / region, for instance:
Individual1 SpecimenID1.1 FACS well brain middle temporal gyrus 21 frozen single nucleus FALSE TRUE 60 years
Individual1 SpecimenID1.2 FACS well brain middle temporal gyrus 21 frozen single nucleus FALSE TRUE 60 years
Individual2 SpecimenID2.1 FACS well brain middle temporal gyrus 21 frozen single nucleus FALSE TRUE 50 years
Individual2 SpecimenID2.2 FACS well brain middle temporal gyrus 21 frozen single nucleus FALSE TRUE 50 years
Individual2 SpecimenID2.3 FACS well brain middle temporal gyrus 21 frozen single nucleus FALSE TRUE 50 years
Individual2 SpecimenID2.4 FACS well brain middle temporal gyrus 21 frozen single nucleus FALSE TRUE 50 years
Individual2 SpecimenID2.5 FACS well brain middle temporal gyrus 21 frozen single nucleus FALSE TRUE 50 years
Individual2 SpecimenID2.6 FACS well brain middle temporal gyrus 21 frozen single nucleus FALSE TRUE 50 years
Individual3 SpecimenID3.1 FACS well brain middle temporal gyrus 21 frozen single nucleus FALSE TRUE 42 years
Individual3 SpecimenID3.2 FACS well brain middle temporal gyrus 21 frozen single nucleus FALSE TRUE 42 years
should this biospecimens be treated as individual snRNA-Seq samples? (for batch correction, clustering etc) or can the fastq files from these just be concatenated?
We would really appreciate if you can clarify how to "merge" this data on the correct way, or to point us to the information of how to do it properly,
Many thanks again!
Gerardo
Created by Gerardo Garcia gerardo_garcia Hi Gerardo,
Each unique specimenID represents a unique biospecimen from each individual and should be treated as distinct snRNAseq sample. We have some more detailed documentation on the structure of AD portal metadata [here](https://help.adknowledgeportal.org/apd/About-Metadata.2241626149.html#AboutMetadata-Whatisthestructureofmetadata?), and an example of joining metadata to data files [here](https://help.adknowledgeportal.org/apd/Use-Case-%233:-Accessing-and-Joining-Metadata-Files-With-Data.2426208334.html).
Let me know if you run into any other issues!
Abby
Drop files to upload
Multiple biospecimens by individual? page is loading…