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. 2024 Jan 30;56(3):383–394. doi: 10.1038/s41588-024-01653-6

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© The Author(s) 2024

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Extended Data Fig. 2 — a, Principal-component analysis of FANS-seq data from MSNs of caudate nucleus and putamen from 8 control donors. The main principal components separated datasets according to MSN subtype (P.C.1) and donor sex (P.C.2). Notably, none of the top principal components related to the brain region of origin (that is caudate nucleus or putamen). b, Number of genes with expression level above an arbitrary cutoff value of 5 transcripts per million (TPM) in individual FANS-seq datasets from control donors (mean is plotted). c, The number of genes with accessible transcriptional start sites (acc.), defined as having a consensus ATAC-seq peak at the transcriptional start sites (TSS), in striatal cell types from control donors. ATAC-seq datasets could not be produced from CHAT+ INs due to their low abundance in striatal tissue. Genes have been grouped according to average expression level in FANS-seq datasets from the specified cell type in control donors (n = 6-8 individuals). Excluding genes with inaccessible promoters removed a large proportion of genes with very low expression levels (<1 TPM) while affecting fewer genes with moderate to high expression (>10 TPM). See also Supplementary Note 1.