Protocol Archive

This protocol details the use of a lysosomal membrane permeability (LMP) assay following cell treatment and fixation.

This protocol details the use of an AlexaFluor 488 protein labeling kit to fluorescently label alpha synuclein preformed fibril protein for future application.

This protocol describes how to detect alpha-synuclein protein in mouse dorsal medulla oblongata tissue by western blot.

This protocol describes the treatment of human enteroendocrine cell models Hutu80 and NCI h716 parental cells with SCFAs and GCase inhibitor (CBE) in order to detect the impact of SCFAs and GCAse inhibition on alpha synuclein protein expression by immunoblotting.

This protocol is a basic description of maintenance and culturing of human embryonic kidney cells (HEK-293).

This protocol details immunofluorescence labeling and imaging of cholinergic interneurons along with striatal astrocytes in formalin-fixed paraffin-embedded (FFPE) post-mortem human brain tissues.

This protocol details the lysosomal activity DQ-Red BSA Assay. This is for treatment to live cells followed by fixation for imaging. Red signal is detected only when fluorogenic substrate is hydrolyzed by lysosomal proteases.

This protocol explains steps for confocal imaging and analysis to measure inter-soma distance between interneurons/pMSNs & nearest astrocyte.

This protocol details the preparation of alpha synuclein preformed fibrils for in vitro treatment to cells for the analysis of protein uptake and processing or clearance.

Fecal sample collection from mice to use for gut microbiome sequencing analysis.

Test for anhedonia-like behavior in mice.

Behavioral test for anxiety-like behaviors in mice.

This protocol is for training mice operant conditioning to assess cognitive performance using the resources described in Matikainen-Ankney BA et al. 2021.

This is a description of the preparation of different drugs for use in live animals (in vivo) or in brain slices (ex vivo).

Protocol for ADP Glo (Promega) assay to measure the catalytic activity of the lipid kinase VPS34 on small unilammelar vesicles.

Details model building of the PI3KC3-C1/RAB!A complex using chimeraX1.5-1.6 and ISOLDE. Refinement was done using Phenix real space refinement.

Bacterial expression of the GTPase deficient Q70L mutant of human RAB1A.

This protocol outlines the procedure to produce preformed fibrils (PFF). It has been adapted from Volpicelli-Daley et al., 2014.

This protocol is used to create adhesive and bioactive substrate for neural cell types, low to high density neurons, astrocytes, or organoids. It is based on standard methods but includes several optimizations, use case recommendations, alternatives, and advice.

Method for injection of alpha-synuclein preformed fibrils in the gut in a mice.