Overview

The ASAP-PMDBS dataset consists of ~3 million cells from five source datasets, spanning nine brain regions, and various pathologies. These cells were integrated and clustered into 30 clusters. Click on the hyperlinks to view these cells and filters in the ABC Atlas.

Using with the Whole Human Brain taxonomy

ASAP-PMDBS cells were mapped to the whole human brain (WHB) taxonomy (Siletti et al., 2023), which is hierarchical taxonomy of ~3.3 million cells (neurons and non-neuronal cells) with 31 superclusters, 461 clusters, and 3,313 subclusters spanning 105 anatomical dissections across the whole human brain. The 30 ASAP-PMDBS clusters were mapped at the WHB superclustercluster, and subcluster levels. Click on the hyperlinks to view the ASAP-PMDBS clusters in the ABC Atlas side-by-side with the WHB neuronal and non-neuronal cells.

To change the taxonomy level filter, click on the ink drop (🌢) next to "10x Whole human brain taxonomy" and click either supercluster, cluster, or subcluster.

Using with the SEA-AD taxonomy

ASAP-PMDBS  cells were also mapped to the Seattle Alzheimer’s Disease Brain Cell Atlas (SEA-AD) taxonomy (Gabitto and Travaglini et al., 2024), which contains ~1.4 million cells from the middle temporal gyrus (MTG) clustered into 3 classes, 24 subclasses, and 139 supertypes. The 30 ASAP clusters were mapped at the SEA-AD classsubclass, and supertype levels. Click on the hyperlinks to view the ASAP-PMDBS clusters in the ABC Atlas side-by-side with the SEA-AD cells.

To change the taxonomy level filter, click on the ink drop (🌢) next to "10x Human MTG SEA-AD taxonomy" and click either class, subclass, or supertype.

Using with the SEA-AD MERFISH data

The SEA-AD taxonomy also features MERFISH spatial transcriptomic data from ~300k MTG cells from 24 of the SEA-AD donors. These cells are included in the 3 classes, 24 subclasses, and 139 supertypes. The ASAP-PMDBS cells mapped to the SEA-AD taxonomy can be viewed side-by-side with the MERFISH SEA-AD data at the class, subclass, and supertype levels. Click on the hyperlinks to view the ASAP-PMDBS clusters in the ABC Atlas side-by-side with the SEA-AD MERFISH cells.