Characterizing dysbiosis of the Parkinson’s disease gut microbiome using shotgun metagenomics
By onParkinson's disease is a progressive neurodegenerative condition with altered gut microbiome composition. A study analyzed fecal samples from 490 PD patients and 234 healthy individuals to understand dysbiosis at a detailed level.
Global Parkinson’s Genetics Program Data Release 6
By onThis release includes >20,000 additional participants adding to the previous releases from the Complex and Monogenic Networks. The complex disease data (genotypes), including locally-restricted samples, now consists of a total of 44,831 genotyped participants (24,709 PD cases, 17,246 Controls, and 2,876 ‘Other’ phenotypes) The monogenic disease data (whole genome sequences) now consists of a total of 2,324 sequenced participants (1,854 PD cases, 314 Controls, and 156 ‘Other’ phenotypes) For any publications using data from this release, please reference the DOI number and the following statement: "Data (DOI 10.5281/zenodo.7904832, release 5) used in the preparation of this article were obtained from the Global Parkinson’s Genetics Program (GP2)."
Single-cell somatic copy number variants in brain using different amplification methods and reference genomes
By onSomatic mutations in the brain are well-known, requiring single-cell whole genome amplification before sequencing. PicoPLEX, MDA, and PTA whole genome amplification methods were compared on brain nuclei, showing different properties.
Alpha-synuclein overexpression can drive microbiome dysbiosis in mice
By onPersons with PD have a distinct gut microbe composition. Studies on gut microbiome changes before and during PD are limited. Overexpression of α-synuclein in mice alters gut bacteria with age, suggesting a link between microbiome and PD pathology.
Ginkgo bins for hg38 and T2T-CHM13
By onVariable and constant sized bins for GRCh38 and T2T-Chm13 were generated using the buildGenome scripts provided with Ginkgo ().
Dataset: Parkinson’s Families Project: a UK-wide study of early onset and familial Parkinson’s disease
By onParkinson’s Families Project, aims to identify genetic variations linked to familial and early-onset Parkinson's disease. SNP array genotyping, MLPA, and WGS were performed to study pathogenic mutations and their association with clinical factors.
SNP Array Genotyping and Phenotypic Data: “Parkinson’s Families Project: a UK-wide study of early onset and familial Parkinson’s disease”
By onStudy on Parkinson's disease families in the UK collected genotypic data from 698 samples using Illumina NeuroChip SNP Array and phenotypic data from 718 samples. The datasets are publicly accessible via EGA.
Cleaned datasets used to perform statistical analyses: “Parkinson’s Families Project: a UK-wide study of early onset and familial Parkinson’s disease”
By onStudy on early onset Parkinson's disease used a pseudo-anonymised dataset for statistical analyses. Clean data was used to analyze polygenic risk scores and principal components in two models.
Single nucleus transcriptomic dataset of AAV-infected mouse OE
By onSingle nucleus sequencing dataset from mouse murine olfactory epithelium exposed to 4 AAV serotypes via nasal lavage.The goal was to identify the best candidate for transduction of olfactory sensory neurons. Code is included with the dataset.
Source Data and protocols for White, et al 2025- The pyrethroid insecticide deltamethrin disrupts neuropeptide and monoamine signaling pathways in the gastrointestinal tract
By onThe manuscript investigates pyrethroid toxicity in enteroendocrine cells and the gastrointestinal tract. It includes source data, statistical output, qPCR gene expression analysis, RNAseq analysis, Metascape pathway analysis, and key resources.
WGS data related to “Is Gauchian genotyping of GBA1 variants reliable’
By onGauchian software helps identify GBA1 variants but struggles with rare ones due to database limitations, impacting diagnostic accuracy. Data from this study will aid future research on GBA1 variants.
Single cell long read whole genome sequencing reveals somatic transposon activity in human brain
By onSingle-cell long-read sequencing of three brains reveals brain-specific transposable element activity and cell genome dynamics.
