A Multimodal Atlas of Human Brain Cell Types 2021 Data

Human neocortical neurons display diverse morphology, physiology and gene expression profiles. We use a method called Patch-seq, where these three data modalities are assayed simultaneously from the same neuron, to understand how the genetic profile of human neocortical neuron types corresponds to their morphological and electrophysiological phenotypes. This dataset consists of transcriptome samples collected during Patch-seq recordings from layer 5 pyramidal neurons in the human middle temporal gyrus.]]>
To determine the corresponding transcriptomic cell type for each Patch-seq sample, we utilized a tree-based mapping strategy. For each neuron, we computed its correlation with each branch of the reference cell type taxonomy, starting from the root and working toward the leaves. Marker genes associated with each branch of the taxonomy were used for correlations. The confidence of the mapping was determined by applying 100 bootstrapping iterations of the process. For each iteration 70% of the reference cells and 70% of maker genes were randomly sampled for mapping. The percentage of times a given cell mapped to a given transcriptomic cell types was the mapping probability. Only neurons with a mapping probability greater than 50% to a given terminal leaf were included. As an additional quality control measure, only Patch-seq samples with a normalized summed expression of "on"-type marker genes were included. ]]>