fnmol-14-699562 July 2, 2021 Time: 17:11 # 1 ORIGINAL RESEARCH published: 08 July 2021 doi: 10.3389/fnmol.2021.699562 Spatial RNA Sequencing Identifies Robust Markers of Vulnerable and Resistant Human Midbrain Dopamine Neurons and Their Expression in Parkinson’s Disease Julio Aguila1†, Shangli Cheng2,3†, Nigel Kee1,4,5, Ming Cao1, Menghan Wang2,3, Qiaolin Deng2,3*† and Eva Hedlund1,4,5*† 1 Department of Neuroscience, Karolinska Institutet, Stockholm, Sweden, 2 Department of Physiology and Pharmacology, Karolinska Institutet, Stockholm, Sweden, 3 Center for Molecular Medicine, Karolinska University Hospital, Stockholm, Sweden, 4 Department of Cell and Molecular Biology, Karolinska Institutet, Stockholm, Sweden, 5 Department Edited by: of Biochemistry and Biophysics, Stockholm University, Stockholm, Sweden Ildikó Rácz, University Hospital Bonn, Germany Reviewed by: Defining transcriptional profiles of substantia nigra pars compacta (SNc) and ventral Sandra Blaess, tegmental area (VTA) dopamine neurons is critical to understanding their differential University of Bonn, Germany Kelvin C. Luk, vulnerability in Parkinson’s Disease (PD). Here, we determine transcriptomes of human University of Pennsylvania, SNc and VTA dopamine neurons using LCM-seq on a large sample cohort. We United States apply a bootstrapping strategy as sample input to DESeq2 and identify 33 stably *Correspondence: differentially expressed genes (DEGs) between these two subpopulations. We also Qiaolin Deng
[email protected] compute a minimal sample size for identification of