Uploading Data to Zenodo Guide
By onThis document provides step-by-step instructions for how to upload datasets to Zenodo. The ASAP Open Science Policy requires all previously unpublished datasets that are included in a publication be deposited in a publicly accessible repository no later than time of publication and cited in the publication with their persistent identifier. We recommend Zenodo for tabular data and any data types that don't have a data type-specific repository.
Guide to Sharing De-Identified Human Subject Data
By onThe purpose of this document is to provide an overview of considerations for publishing de-identified, individual human subject data in preparation for publication. Human subject data may be classified as sensitive data, which are data that contain personal information, such as protected health information, and any other data that is likely to negatively harm an individual or community if publicly released. The ASAP Open Science Policy requires that sensitive data must be deposited to the extent allowed by the associated research ethics approval. If the data can be openly shared, then we require these data be deposited in a publicly accessible repository. If the data cannot be openly shared, but can be shared with restricted or controlled access, then it must be shared as restricted or controlled data, and come with instructions for how to request access to the data. Please note that we require that grantees collecting data from human participants to provide evidence that there has been satisfactory review and approval of the plan to collect and/or share such data from the appropriate ethics committee(s) (or evidence that no such approval is required).
Formatting Tabular Data Guide
By onThe purpose of this document is to provide guidance on how to properly format and share tabular data to increase accessibility and interoperability. The ASAP Open Science Policy requires that the data underlying all results reported in a manuscript be deposited in a publicly accessible repository. This must be done no later than time of publication and the dataset must be cited in the publication with a persistent identifier. To assist ASAP grantees in sharing usable tabular data and to ensure that they meet the ASAP data-sharing standards outlined in this document, the Open Science Team will review all ASAP-affiliated Zenodo dataset uploads.
Cathepsin-dependent amyloid formation drives mechanical rupture of lysosomal membranes
By onLysosomal membrane integrity is crucial for cell function. LLOMe causes damage by forming amyloid structures in lysosomes, leading to membrane rupture. This mechanism sheds light on neurodegeneration and lysosomal storage disorders.
Network models of neurodegeneration: bridging neuronal dynamics and disease progression
By onWe review computational models for Parkinson’s disease, covering neuronal dynamics and protein pathology spread and highlight how computational perspectives can improve understanding of disease progression in Parkinson’s disease.
Dementia with Lewy bodies and Parkinson disease dementia – the same or different and is it important?
By onReview compares late Parkinson's disease with dementia with Lewy bodies, discussing a biological assay for Lewy pathology. Suggests one assay may not capture complex brain pathologies, favoring diverse sequential mechanisms at various disease stages.
Culturing Primary Hippocampal Neurons from Embryonic Rat Brain
By onProtocol for culturing hippocampal primary neurons from embryonic rats is described.
Incentive valence differentially engages open- and closed-loop basal ganglia circuits during movement initiation
By onThis study used neuroimaging to show a ventral putamen-centered open-loop circuit linking emotions and movement in humans. Contextual incentives influence which motor circuit is activated, shedding light on paradoxical kinesia in Parkinson's Disease.
Human Spatial Transcriptomics data for article “CHCHD2 mutant mice link mitochondrial deficits to PD pathophysiology” by Liao et al
By onMitochondrial dysfunction in Parkinson's disease involves CHCHD2 mutation leading to disrupted protein interactions, mitochondrial damage, glycolysis shift, increased ROS, and α-synuclein aggregation, linking to neurodegeneration.
Processed Proteomics Data for Article “CHCHD2 mutant mice link mitochondrial deficits to PD pathophysiology” by Liao et al
By onMitochondrial dysfunction is linked to CHCHD2 mutation, causing disrupted protein interactions, metabolic shift to glycolysis, ROS elevation, and α-synuclein aggregation. CHCHD2 accumulation leads to neurodegeneration via impaired respiration.
Primary Tabular Data for article “CHCHD2 mutant mice link mitochondrial deficits to PD pathophysiology” by Liao et al
By onMitochondrial dysfunction is linked to CHCHD2 mutation, causing altered protein interactions, glycolysis, and ROS, plus α-synuclein aggregation, and neurodegeneration. CHCHD2 accumulation leads to mitochondrial impairment and PD progression.
Dataset for Article “Presynaptic GABAA receptors control integration of nicotinic input onto dopaminergic axons in the striatum” by Brill-Weil et al
By onDopaminergic neuron axons have GABAARs and nAChRs that influence DA release. GABAAR antagonism enhances nAChR activity, while picrotoxin inhibits nAChRs, revealing GABAARs' role in regulating nicotinic input onto DA axons.
Myeloid PINK1 represses mtDNA release and immune signaling that impacts neuronal pathology in patient-derived idiopathic PD models
By onPINK1 represses mtDNA release and STING/NF-κB activation in peripheral macrophages of PD model laying the foundation for understanding PINK1-related peripheral mechanisms in idiopathic PD and providing targets for further therapy development
A CellProfiler Pipeline for Quantification of p-SNCA in Mouse Striatal Cholinergic and Medium Spiny Neurons
By onBrain sections stained for pSNCA, DARPP-32, ChAT, and DAPI. Z-stacks processed into MIPs for analysis. Outputs include pSNCA intensity and neuronal mask area, normalised for cell type-specific burden using R script.
An ImageJ/FIJI Preprocessing Workflow for Multi-Series Confocal Microscopy Datasets Prior To CellProfiler Analysis
By onA workflow using ImageJ/FIJI aims to create three-slice MIPs from multi-series .czi files to capture weak signals. It involves extracting datasets, creating projections, and saving images for efficient analysis in CellProfiler.
An anatomical hotspot for striatal dopamine-acetylcholine interactions during reward and movement
By onDopamine and acetylcholine interact in the brain to regulate movement and learning. This study shows that dopamine precedes and suppresses acetylcholine in a specific brain region, impacting reward processing and movement.
SDS and Clear Native Gel Electrophoresis
By onProtocol outlines SDS-PAGE & clear native PAGE for analyzing α-synuclein, Gba, & related proteins from mouse brain samples.
Postnatal primary hippocampal neuronal cultures
By onThis protocol describes the preparation of postnatal primary hippocampal neuronal cultures.
Synaptic vesicle preparation from mouse brain
By onProtocol for isolating synaptic vesicles from mouse brains. Resulting SV-enriched fractions are used for biochemical analyses.
