Catalog

ASAP is committed to accelerating the pace of discovery and informing a path to a cure for Parkinson’s disease through collaboration, research-enabling resources, and data sharing. We’ve created this catalog to showcase the research outputs and tools developed by ASAP-funded programs.

Article

“LRRK2 phosphorylation of Rab GTPases in Parkinson’s disease”

Review: This paper highlights new findings related to LRRK2-mediated phosphorylation of Rab GTPases and their consequences.

Protocol

3D-correlative FIB-milling and Cryo-ET of Autophagic structures in Yeast Cells

This protocol describes how to plunge-freeze yeast on EM grids and how to target autophagic structures by combining cryo confocal fluorescence data to FIB-milling and tomogram acquisition.

Blog Post

A Blueprint for Training and Development in GP2

This blog written by Dr. Alastair Noyce and Dr. Sara Bandres-Ciga discusses GP2’s plan to train students and investigators and the new considerations as a result of the COVID-19 pandemic.

Article

A feed-forward pathway drives LRRK2 kinase membrane recruitment and apparent activation

Published: Mutations in LRRK2 that cause PD activate its kinase activity. These activating mutations of LRRK2 phosphorylate Rab GTPases. The authors define two binding sites on LRRK2 that deliver it to the surfaces of specific intracellular membranes, and then retain it there after an initial phosphorylation event. View original preprint here.

Protocol

A fluorescence-based in vitro scrambling assay for yeast MCP1 and human XK

Detailed procedure of purification, reconstitution, and scrambling assay for both MCP1 and XK.

Blog Post

A letter to the patient community from Randy Schekman, ASAP Scientific Director

This blog written by Dr. Randy Schekman and Benjamin Stecher describes the motivation and beginnings of the ASAP initiative. It also includes a letter written to the PD comunity by Dr. Schekman.

Article

A Markov random field model-based approach for differentially expressed gene detection from single-cell RNA-seq data

The MARBLES, a Markov Random Field model-based approach for differentially expressed gene detection from scRNA-seq data can capture cell-type relationships and account for sample variation by modeling cell-type-specific pseudobulk data. The authors used simulation results to compare this approach to existing methods from two scRNA-seq datasets.

Article

A possible role for VPS13-family proteins in bulk lipid transfer, membrane expansion, and organelle biogenesis.

Review: This review focuses on the structure and function of the VPS13 family of proteins and discusses the prevailing hypthoses in the field regarding its role in lipid transport.

Article

A step forward for LRRK2 inhibitors in Parkinson’s disease

Review: A discussion on learnings from phase 1 clinical trial for kinase inhibitors targeting LRRK2 that can provide the foundations for moving towards testing the efficacy of LRRK2 kinase inhibition in Parkinson’s disease.

Article

A unifying model for the role of the ATG8 system in autophagy

Review: The core ATG8 system is one of the most-studied autophagy components. Here, authors reconcile prior observations of the core ATG8 system into a unifying model. Bypass pathways of autophagy that function independently of the core ATG8 system are also discussed.

Protocol

Activation Induced Marker (AIM) Staining Protocol

This protocol details about activation induced marker staining.

Protocol

ADP-Glo kinase assay

An assay for measuring ULK1 kinase activity.

Article

ALS- and FTD-associated missense mutations in TBK1 differentially disrupt mitophagy

Published: TBK1 mutations are linked to neurodegenerative disorders. The authors explored how TBK1 functions in PINK1/Parkin-dependent mitophagy and how mutations lead to disease. TBK1 recruitment and kinase activity contributed to the clearance of damaged mitochondria (mitophagy). Further, they showed that TBK1 presence alone could disrupt the mitochondrial network. View original preprint.