Primary data associated with the manuscript, “Restoration of striatal neuroprotective pathways by kinase inhibitor treatment of Parkinson’s linked-LRRK2 mutant mice” (doi: 10.1101/2024.07.31.606089)
By Emma Sherrell onPrimary data associated with the manuscript, "Restoration of striatal neuroprotective pathways by kinase inhibitor treatment of Parkinson’s linked-LRRK2 mutant mice." (doi: 10.1101/2024.07.31.606089)
Source data of “Disruption of lysosomal proteolysis in astrocytes facilitates midbrain organoid proteostasis failure in an early-onset Parkinson’s disease”
By Emma Sherrell onTabular datasets for Morrone Parfitt, G., Coccia, E., Goldman, C. et al. Disruption of lysosomal proteolysis in astrocytes facilitates midbrain organoid proteostasis failure in an early-onset Parkinson's disease model. Nat Commun 15, 447 (2024). https://doi.org/10.1038/s41467-024-44732-2
Ginkgo bins for hg38 and T2T-CHM13
By Emma Sherrell onVariable and constant-sized bins for GRCh38 and T2T-Chm13 were generated using the buildGenome scripts provided with Ginkgo (https://github.com/robertaboukhalil/ginkgo/tree/master/genomes/scripts).
Parkinson’s disease MAGMA analysis ranked genes
By Emma Sherrell onGWAS summary statistics for Parkinson’s Disease risk were obtained from EBI GWAS Catalog Study ID: GCST009325 (PMID: 31701892) and processed using the MAGMA tool on FUMA’s online platform to generate a scored list (z-scores) of significant genes.
Source data for “α-Synuclein pathology disrupts mitochondrial function in dopaminergic and cholinergic neurons at-risk in Parkinson’s disease”
By Emma Sherrell onImages and raw data for the figures in the paper, "α-Synuclein pathology disrupts mitochondrial function in dopaminergic and cholinergic neurons at-risk in Parkinson's disease."
Targeted long-read RNA-seq
By savannah onTargeted long-read RNAseq of SNCA, GBA1, and GBAP1. The sequencing data is PacBio Sequel IIe targeted Iso-Seq where enrichment was performed using hybridization probes. Three datasets are available: (i) human brain (ii) iPSC-derived astrocytes microglia neurons and (iii) iPSC-derived midbrain dopaminergic neurons.
SoCal Kinesia and Incentivization for Parkinson’s Disease (SKIP): Incentivized Reaching
By savannah onIncentivized Reaching Task from the SKIP Dataset. The Socal Kinesia and Incentivization for Parkinson's Disease (SKIP) dataset facilitates research across human sciences, focusing on human movement and the modulatory impact of incentivization, specifically in the context of Parkinson's disease. This dataset contains data from healthy controls only.
SoCal Kinesia and Incentivization for Parkinson’s Disease (SKIP): Ultra-High Field Functional Connectivity
By savannah onUltra-High Field Functional Connectivity / Network Mapping from the SKIP Dataset. The Socal Kinesia and Incentivization for Parkinson's Disease dataset facilitates research across human sciences, focusing on human movement and the modulatory impact of incentivization, in the context of Parkinson's disease. This dataset contains data from healthy controls.
SoCal Kinesia and Incentivization for Parkinson’s Disease (SKIP): Approach-Avoid
By savannah onApproach-Avoid Task from the SKIP Dataset. The Socal Kinesia and Incentivization for Parkinson's Disease (SKIP) dataset facilitates research across human sciences, focusing on human movement and the modulatory impact of incentivization, specifically in the context of Parkinson's disease (PD). This dataset contains data from healthy controls only.
SoCal Kinesia and Incentivization for Parkinson’s Disease (SKIP): Active Escape
By savannah onActive Escape Task (activeescape) from the SKIP Dataset. The Socal Kinesia and Incentivization for Parkinson's Disease (SKIP) dataset facilitates research across human sciences, focusing on human movement and the modulatory impact of incentivization, specifically in the context of Parkinson's disease (PD). This dataset contains data from healthy controls only.
Data and code for “α-Synuclein Overexpression and the Microbiome Shape the Gut and Brain Metabolome in Mice”
By savannah onMetabolomic data and analysis code associated with the article, "α-Synuclein Overexpression and the Microbiome Shape the Gut and Brain Metabolome in Mice."
Refinement of efficient encodings of movement in the dorsolateral striatum throughout learning (DATA)
By savannah onLocomotion velocity (rod encoder) and calcium imaging data were used in the research publication, "Refinement of efficient encodings of movement in the dorsolateral striatum throughout learning" by Jaidar and Albarran et al., 2024.
Raw images and quantification of IHC TYROBP from Kilfeather & Khoo et al. (2024) “Single-cell spatial transcriptomic and translatomic profiling of dopaminergic neurons in health, aging, and disease”
By savannah onRaw microscopy images and quantification of TYROBP expression in mouse brain slices.
Raw images and quantification of IHC CASR expression from Kilfeather & Khoo et al. (2024) “Single-cell spatial transcriptomic and translatomic profiling of dopaminergic neurons in health, aging, and disease”
By savannah onRaw microscopic images and quantification of CASR expression in mouse brain slices.
Control of mitophagy initiation and progression by the TBK1 adaptors NAP1 and SINTBAD
By savannah onMitophagy preserves overall mitochondrial fitness by selectively targeting damaged mitochondria for degradation. The regulatory mechanisms that prevent autophagy pathways from overreacting while ensuring swift progression once initiated are largely elusive. The authors shed light on a cellular strategy to prevent pathway hyperactivity while still ensuring efficient progression.
Identification of phosphorylation sites on NAP1/AZI2
By savannah onThe authors observed smearing for the TBK1-adaptor protein NAP1/AZI2 during mitophagy. To verify whether this smearing was due to phosphorylation by TBK1, the authors performed an in vitro kinase assay and complemented this with the immunoprecipitation of NAP1 from HAP1, whose genetic background (FIP200 knockout) results in hyperactivation of TBK1.
Data sets related to “Kufor-Rakeb Syndrome-Associated Psychosis: A Novel Loss-of-Function ATP13A2 Variant and Response to Antipsychotic Therapy”
By savannah onData sets related to "Kufor-Rakeb Syndrome-Associated Psychosis: A Novel Loss-of-Function ATP13A2 Variant and Response to Antipsychotic Therapy."
MS proteomics data related to “Disruption of lysosomal proteolysis in astrocytes facilitates midbrain organoid proteostasis failure in an early-onset Parkinson’s disease”
By Emma Sherrell onMS proteomics data related to "Disruption of lysosomal proteolysis in astrocytes facilitates midbrain organoid proteostasis failure in an early-onset Parkinson’s disease" deposited to the MassIVE repository with the dataset identifier MSV000090202.
Metabolomics data related to “Disruption of lysosomal proteolysis in astrocytes facilitates midbrain organoid proteostasis failure in an early-onset Parkinson’s disease”
By Emma Sherrell onThe metabolomics is submitted at the NIH Common Fund’s National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org where it has been assigned Project ID (PR001491). The data can be accessed directly via its Project DOI: (https://doi.org/10.21228/M80M7R).
Figure 2. Rubicon and Pacer RH domain have inverted pRAB7A binding specificity [FINAL]
By savannah onFigure 2. Rubicon and Pacer RH domain have inverted pRAB7A binding specificity.
