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Published March 6, 2024 | Version 1.0
Dataset Open

Single nuclei sequencing of brain regions from healthy and Parkinson's Disease individuals

Authors/Creators

  • 1. Laboratory of Molecular Neurogenetics, Department of Experimental Medical Science, Wallenberg Neuroscience Center and Lund Stem Cell Center, BMC A11, Lund University, 221 84 Lund, Sweden.
  • 2. Department of Clinical Neurosciences, University of Cambridge and Department of Pathology, Cambridge University Hospitals NHS Foundation Trust, Cambridge, UK
  • 3. Institute for Systems Genetics, Department of Neuroscience and Physiology, NYU Langone Health, New York, NY 10016, USA. Neuroscience Institute, NYU Grossman School of Medicine, New York, NY 10016, USA.
  • 4. Novo Nordisk Foundation Center for Stem Cell Medicine (reNEW) and Department of Neuroscience, University of Copenhagen, Copenhagen, Denmark.

Description

This Zenodo deposit contains a publicly available description of the Dataset:

Title: "Single nuclei sequencing of brain regions from healthy and Parkinson's Disease individuals".

Description: We performed single nuclei RNA sequencing of postmortem PD and control brain tissue of four different brain regions (substantia nigra, putamen, amygdala, and prefrontal cortex). Briefly, 8500 nuclei were FACS sorted from approximately 2 mm3 of tissue. Single nuclei RNAseq libraries were prepared using 10X genomics platform for single cell 3' sequencing. Sequencing libraries are prepared by fragmentation, end repair and a tailing followed by sample index PCR. To process the data, FASTQ files were processed using Cell Ranger, aligning and quantifying for hg38. Intronic reads were also quantified.

This dataset is made available to researchers via the ASAP CRN Cloud: cloud.parkinsonsroadmap.org. Instructions for how to request access can be found in the User Manual.

This research was funded by the Aligning Science Across Parkinson's Collaborative Research Network (ASAP CRN), through the Michael J. Fox Foundation for Parkinson's Research (MJFF).

This Zenodo deposit was created by the ASAP CRN Cloud staff on behalf of the dataset authors. It provides a citable reference for a CRN Cloud Dataset

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Additional details

Funding

Aligning Science Across Parkinson's
Activation of transposable elements as a trigger of neuroinflammation in Parkinson’s disease ASAP-000520

References