Whole cell protein extraction and Western blotting
By onThis protocol describes cell lysis for whole-cell protein extraction followed by western blotting using LI-COR Odyssey quantitative western blot.
PFF seeding in iPSC-derived cortical neurons
By onHow to seed intracellular inclusions via exogenous addition of short-length pre-formed aSyn fibrils.
Proximity ligation assay
By onProximity ligation assay (PLA) in iPSC-derived cortical neurons. Permeabilization with Saponin detergent is used to preserve lipid-rich inclusions.
Generation of preformed αS fibrils
By onThis protocol describes the generation of wild-type recombinant alpha-synuclein preformed fibrils (PFFs).
Stable integration of piggyBac plasmids into U2OS cells
By onGeneration of stably transfected U2OS human osteosarcoma cell line with piggyBac constructs.
Mitochondrial subunit assay in hiPSC-derived neurons.
By onAssessment of mitochondrial subunit levels in hiPSC-derived neurons.
BIDCell to Seurat
By onThis repository contains an enabler script to convert the BIDcell segmentation output to a Seurat object for the processing of 10X Genomics Xenium spatial transcriptomics data.
Multiome preprocessing seurat
By onWorkflow to preprocess single nucleus multiome data (gene expression + ATAC) produced with 10X Genomics Cellranger ARC in Seurat.
TULIP – mulTiome demultiplexing Using Long-read SNP Information Pipeline
By onSnakemake pipeline to demultiplex 10x multiome data utilizing SNP calls from WGS sequencing of pooled patients.
Differentiation of WTC11 and KOLF2.1 iPSCs to dopaminergic neurons (forked)
By onThis protocol describes the differentiation of iPSCs (WTC11 and KOLF2.1) to dopaminergic neurons according to Bressan et al 2021.
Temporal control of acute protein aggregate turnover by UBE3C and NRF1-dependent proteasomal pathways
By onNeurodegenerative diseases involve proteostasis loss and protein aggregation leading to cell toxicity. Study reveals proteasome-dependent degradation of misfolded proteins, regulated by NRF1, UBE3C, and RPN13, impacting proteostasis in cells.
Neuronal co-culture
By onThis protocol describes the co-culturing of iPSC-derived dopaminergic (DA) neurons and iPSC-derived medium spiny neurons (MSNs) in a microfluidic compartmentalization device.
Cell culture, transfection, immunocytochemistry, and imaging (iPSC, iNeuorn, DA neuron, RPE cells)
By onThis protocol describes the maintenance, transfection, immunocytochemistry, and imaging of RPE1 and also transfection, immunocytochemistry, and imaging of iPSCs, i3 Neurons and DA neurons.
Generation of knockout iPSCs using CRISPR-Cas9 genome editing
By onThis protocol describes the genetic modification of induced pluripotent cells (iPSCs) using CRISPR-Cas9, including synthesis of gRNA plasmids, transfection, selection of clones, and sequencing of genomic DNA to confirm knockout generation. The steps
Crude Subcellular fractionation of FAM177A1-GFP expressing cells
By onThis protocol details the crude subcellular fractionation of FAM177A1-GFP expressing cells.
Immunoblotting of i3 Neurons and dopaminergic neurons
By onThis protocol describes the preparation of cell lysate from and iPSC-derived neurons (I3 Neurons, dopaminergic) and the immunoblotting procedure.
Protocol for Neuronal Live-imaging of primary cultures
By onThis protocol introduces a concise method for live-imaging neuronal activity.
Protocols: Phosphoglycerate kinase is a central leverage point in Parkinson’s Disease driven neuronal metabolic deficits
By onThe current collection contains all experimental protocols associated with the study "Phosphoglycerate kinase is a central leverage point in Parkinson’s Disease driven neuronal metabolic deficits".
Primary hippocampal and cortical neuronal culture and transfection
By onThis protocol presents an established method to isolate and culture hippocampal and cortical neurons from rat and mouse brains along with a method to sparsely transfect these neurons.
Fluorescence size exclusion chromatography (FSEC) of native nanodiscs
By onThis is a protocol describing how to conduct Fluorescence size exclusion chromatography of native nanodiscs.
