A human single cell atlas of the substantia nigra reveals novel cell specific pathways associated with the genetic risk of Parkinson’s disease and neuropsychiatric disorders.
Updated July 19, 2023A study of the first human single-nuclei transcriptomic atlas for substantia nigra (SN), generated by sequencing ~ 17,000 nuclei from matched cortical and SN samples. Overall design: Single nuclei were extracted and isolated from 3mm2 blocks that were manually dissected from the substantia nigra and cortex of 5 control (4 males & 1Female) de-identified post-mortem human donors, totaling to 12 matched samples, including 2 SN replicates and sequenced using the 10X chromium system (V2).
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Analysis Portals
NoneProject Label
HumanBrainSubstantiaNigraSpecies
Sample Type
Anatomical Entity
Organ Part
Selected Cell Types
Disease Status (Specimen)
Disease Status (Donor)
Development Stage
Library Construction Method
Nucleic Acid Source
Paired End
falseAnalysis Protocol
optimus_post_processing_v1.0.0, optimus_v4.2.3File Format
Cell Count Estimate
18.1kDonor Count
5