Fluorescently labeled polyamine uptake (via confocal microscopy)
By onMethod visualizes polyamine uptake in cells with fluorescently labeled polyamines & confocal microscopy.
CXCL1 ELISA
By onProtocol for ELISA includes sample prep & assay to quantify antigens in biological samples.
Fluorescently labeled polyamine uptake (via flow cytometry)
By onSupplemental video in ASAP Protocol Particulars series provides extra context and tips from protocol authors for Aligning Science Across Parkinson's project.
Differentiation of iPSCs into NGN2 Neurons Protocol
By onProtocol uses doxycycline to induce neurogenin 2 in iPSCs for neuron differentiation, aiding research on neuronal development and function.
Human Induced Pluripotent Stem Cell (hiPSC) Culture and Passaging Protocol
By onProtocol for hiPSC maintenance and passage using Geltrex-coated plates and StemFlex medium for optimal growth and reduced differentiation.
Differentiation of Human Induced Pluripotent Stem Cells into Midbrain Neurons
By onProtocol uses specific media and growth factors to convert hiPSCs into midbrain neurons with high purity and reproducibility for transplantation and disease modeling.
Protocol for Dissociation and Culture of Midbrain Astrocytes and Neurons
By onProtocol for isolating and culturing midbrain astrocytes and neurons in specific ratios to preserve viability and differentiation potential for future research purposes.
Astrocyte-Conditioned Media (ACM) cultures
By onAstrocyte-conditioned media (ACM) is created for research on D25 midbrain organoids and 2D neuronal cultures.
Protocol for Live-Cell Imaging of Astrocytes Exposed to HiLyte™ 488-labeled Human Recombinant α-Synucleins
By onProtocol studies impact of HiLyte™ 488-labeled human recombinant α-synuclein on astrocytes through live-cell imaging at different time points post-exposure.
Quantification of Cell Death and Cytotoxicity Using LDH-Glo™ Cytotoxicity Assay
By onThe LDH-Glo™ Cytotoxicity Assay quantifies cell death and cytotoxicity in cultured cells by measuring LDH released from damaged cells.
Evaluation of the Inflammatory Secretome of Astrocytes Using Cytokine Array
By onAstrocyte secretome studied with Proteome Profiler™ Human XL Cytokine Array Kit to analyze and quantify cytokine expression levels in conditioned media.
Behavioral screening defines the molecular Parkinsonism-related subgroups in Drosophila
By onWe 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.
PD5D long read DNA-seq
By onThe dataset includes CCS corrected HiFi lrDNAseq in FASTQ format for 100 PMDBS samples from Parkinson's patients and controls. Part of PD5D atlas, subjects were also profiled with genotyping, single-cell ATACseq, and spatial transcriptomics.
Release Notes – ASAP CRN Cloud – Version 4.0.0
By onASAP CRN Cloud released version 4.0.0 with expanded datasets including Human Postmortem-derived Brain Sequencing and Mouse datasets. New collections and individual datasets were added, enhancing PMDBS and Mouse RNA sequencing data.
PD5D midbrain single-nucleus RNA-seq hybrid selection
By onDataset includes raw FASTQ files from midbrain snRNAseq with hybrid selection for PD5D samples. Subjects also analyzed with DNAseq, genotyping, single-cell ATACseq, and spatial transcriptomics.
VariantAnalysis: Integrating Long-Read Structural Variant Analysis with single-nucleus RNA-seq to Elucidate Gene Expression Effects in Disease
By onIntegrating Long-Read Structural Variant Analysis with single-nucleus RNA-seq to Elucidate Gene Expression Effects in Disease
Integrating Long-Read Structural Variant Analysis with single-nucleus RNA-seq to Elucidate Gene Expression Effects in Disease
By onLong-read sequencing in PD brain samples identified 74,552 structural variants. Integrating RNA sequencing data revealed SVs near PD-related genes impacting cell type-specific expression, highlighting the importance of SVs in complex diseases.
Chromatin accessibility profiling (ATAC-seq) of human iPSC-derived midbrain astrocytes in ATP13A2 c.1306 deficiency models
By onDataset includes ATAC-seq data comparing WT and ATP13A2 c.1306 mutants in human iPSC-derived midbrain astrocytes to study epigenomic landscape and genome-wide accessibility changes due to genotype.
Transcriptomic profiling of human iPSC-derived midbrain astrocytes in ATP13A2 deficiency (c.1306) models
By onDataset compares gene expression in WT and ATP13A2 c.1306 mutants in midbrain astrocytes to understand transcriptional effects on neuroinflammation and lysosome dysfunction linked to early-onset Parkinson's Disease.
Code – bulkRNA-seq data from WT, ATP13A2 c.1306
By onCode - bulkRNA-seq data from WT, ATP13A2 c.1306 related to "ATP13A2 Loss of Function-Driven Polyamine Dysregulation Induces SAM Depletion and Epigenetic Astrocyte Toxicity"
