Output Catalog
ASAP is committed to accelerating the pace of discovery and informing a path to a cure for Parkinson’s disease through collaboration, research-enabling resources, and data sharing. We’ve created this catalog to showcase the research outputs and tools developed by ASAP-funded programs.
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Output Type
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Program
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CRN Team Name
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Theme
Behavioral screening defines three molecular Parkinsonism subgroups in Drosophila
We created a new collection of 24 genetically well-controlled Drosophila models of familial forms of parkinsonism. Using unbiased behavioral screening and machine learning we identified three clusters of mutants that converge.
Modeling cis-regulatory variation in human brain enhancers across a large Parkinson’s Disease cohort
GWAS have linked more than hundred non-coding genomic loci to Parkinson’s disease (PD) risk. Here, we establish a unique resource and new sequence modeling strategies to interpret functional non-coding variation in the human brain.
Single nuclei RNA sequencing (ParseBio) of postmortem cingulate cortex,midbrain and motor cortex of healthy donors and Parkinson’s disease patients
The dataset includes snRNA-seq data from postmortem brain samples of healthy donors, Parkinson's disease patients, and other neurological disorder patients.
Single nuclei RNA sequencing (10x) of postmortem cingulate cortex,midbrain and motor cortex of healthy donors and Parkinson’s disease patients – 10x snRNA-seq
Dataset contains snRNA-seq data from postmortem brain samples of healthy donors, Parkinson's patients, and other neurological disorder patients.
Single nuclei RNA sequencing of postmortem cingulate cortex,midbrain and motor cortex of healthy donors and Parkinson’s disease patients – 10x multiome (snRNA-seq and snATAC-seq)
Dataset includes snRNA-seq & snATAC-seq data from postmortem brain samples of healthy donors, Parkinson's patients, and other neurological disorders.
Single nuclei ATAC sequencing of postmortem cingulate cortex,midbrain and motor cortex of healthy donors and Parkinson’s disease patients – 10x snATAC-seq
The dataset includes snATAC-seq data from postmortem brain samples of healthy donors, Parkinson's disease patients, and other neurological disorder patients.
Single nuclei ATAC sequencing of postmortem cingulate cortex,midbrain and motor cortex of healthy donors and Parkinson’s disease patients – HyDrop-ATAC v2
The dataset contains snATAC-seq data from postmortem brain samples of healthy donors, Parkinson's disease patients, and other neurological disorder patients.
Single nuclei ATAC sequencing of postmortem cingulate cortex,midbrain and motor cortex of healthy donors and Parkinson’s disease patients – Scale-ATAC + 10x Genomics
Dataset contains ATAC-seq data from midbrain, cingulate cortex, and motor cortex of healthy donors, Parkinson's patients, and other neurological disorder patients.
Single nuclei ATAC sequencing of postmortem cingulate cortex,midbrain and motor cortex of healthy donors and Parkinson’s disease patients – Scale-ATAC + HyDrop v2
The dataset contains ATAC-seq data from midbrain, cingulate cortex, and motor cortex of healthy donors, Parkinson's patients, and others.
Nuclei isolation of fresh frozen human brain samples for for scRNA-seq
Protocol for isolating nuclei for single-cell RNA sequencing is detailed.
Nuclei isolation from brain tissue for single-cell ATAC
Protocol for isolating nuclei from brain tissue for single-cell ATAC assays like 10X Genomics Chromium Next GEM Single Cell ATAC Kit, HyDrop-ATAC, etc.
Long read whole genome sequencing data from brain postmortem tissue
Dataset includes 172 whole genome sequencing runs from healthy controls and Parkinson's disease patients, sequenced on Oxford Nanopore platform. Data mapped to T2T-CHM13v2.0 reference genome, available in CRAM format.
HyDrop-v2-ATAC
Protocol covers nuclei preparation, ATAC tagmentation, microfluidics setup, HyDrop run, PCR1 cleanup, library purification, and quality control for efficient processing.
Sanger sequencing of barcoded beads
Protocol tests the purity of barcoded hydrogel beads.
HyDrop: data-analysis
Tutorials for HyDrop data analysis
