Hi all,
I am posting a question I received on whether or not a conversion table exists to compare clusters between the Gouwens 2020 (V1), Yao 2021 (whole cortex and hippocampus), and Yao 2023 (whole mouse brain) taxonomies. If not, what would be the best way to compare these taxonomies?
Thank you!
A: In Supplemental Table 7 of the Yao 2023 paper, under the “cluster annotation tab,” the columns “CTX.cluster_id” and “CTX.cluster_label” refer to the equivalent clusters in the Yao 2021 cortex + HPF taxonomy***
***EDIT: As of 05/10/24, please use this updated cluster annotation whole mouse brain (Yao 2023) table for comparing taxonomies instead. The column “CTX/HIP:cluster_label” refers to the equivalent clusters in the Yao 2021 cortex + HPF taxonomy.
Wholebrain 10X joint cl5227 sheet1.csv (2.6 MB)
In Supplemental figure 1 of the Yao 2021 paper, there is a comparison between the Yao 2021 cortex + HPF taxonomy and the Gouwens 2020 MET V1 taxonomy, along with additional taxonomies.
You can also compare Allen Institute taxonomies using the Annotation Comparison Explorer! Here is a webinar and a preprint) for the tool.
There are Allen mouse and human taxonomies available, and Alzheimer’s studies as well.
Here I am comparing Sst clusters between the whole cortex/hip taxonomy (Yao 2021), and the whole mouse brain taxonomy (Yao 2023). This can be used at any level of the taxonomy (class, subclass, supertype, cluster).
