Protocol Archive

This protocol describes purification of NDP52 (untagged).

Nuclei isolation for snRNA-seq.

Debranching of DNA generated by Multiple Displacement Amplification (MDA) is an essential step prior to nanopore sequencing. This protocol describes an optimized T7-based debranching protocol for genomic DNA amplified from single nuclei using droplet MDA (dMDA).

Lysosomal biology is implicated in neurodegenerative diseases and health. It has traditionally been difficult to profile the lipidolomic homeostasis of the lysosome in disease states. To overcome this challenge, the authors have developed the Tagless Lyso-IP method to rapidly prepare lysosome-enriched samples from human peripheral blood.

Cathepsin D assay is a fluorescence-based assay that leverages the activity of cathepsin D to monitor the intactness of lysosomes in the cell. Here, the authors describe a method where the measurement of cathepsin D activity is used to verify the intactness of lysosomes.

Here, the authors describe a step-wise protocol for proteomic sample preparation derived from cell line models or isolated human cells. The protocol has been optimized for organelle pulldown preps.

Fixation and immunostaining protocol for tissue and cell culture.

This protocol details aggregated aSyn Dot Blot assay.

This protocol details the term ‘neuron reconstruction’ which is used here to refer to the process of delineating the different components of neurons (soma, axon, dendrites, and dendritic spines) using light microscopy, to create a geometric model of these cells for subsequent quantitative analyses of aspects of their morphology.

In this protocol, the authors detail the steps to perform ex-vivo brain slice electrophysiology and optogenetic stimulation.

This protocol describes the steps for immunostaining and confocal imaging of ex vivo slices following an electrophysiological experiment.

This protocol was used to analysis glucosylceramide and glucosylsphingosine levels in mouse brains and liver. It was also described in a previous publication (Mol Cell Neurosci. 2020 Jan:102:103451, doi: 10.1016).

This protocol is about collecting mouse tissues for immunohistochemistry or biochemistry experiments. While it is mainly used for brain tissues, it also can be used for other visceral tissues.

This protocol has been used for high throughput quantification of immunohistochemistry data of mouse brain sections.

Micro-PET CT procedures for brain imaging of rats.

Protocol for the detection of proteins by Western blot from tissue extract.

This protocol details the siRNA knockdown in mouse embryonic fibroblasts (MEFs) for PINK1, but applicable for any other target.

This protocol details the extraction of RNA and PCR analysis.

Synapse function and gene enrichment analysis.

This protocol details the passaging and seeding mouse embryonic fibroblasts (MEFs) for experiments.