Output 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.
-
Output Type
-
Program
-
CRN Team Name
-
Theme
Python script used to generate the heatmap representation of identified LRRK1 phosphosites reported in doi: 10.1042/BCJ20220308
Python script used to generate the heatmap representation of identified high-confident LRRK1 phosphosites reported in doi: 10.1042/BCJ20220308.
Python script for Golgi cytoscape analysis
Custom Python script used for the cytoscape network analysis reported in doi.org/10.1101/2022.11.22.517583 (Golgi-IP, a novel tool for multimodal analysis of Golgi molecular content).
Video tutorials for Curtain and Curtain-PTM
Video tutorials to assist users of Curtain and Curtain-PTM proteomic data analysis web tools (described in https://www.biorxiv.org/content/10.1101/2023.07.25.550405v1).
Software for data analysis used in the manuscript “Loss of primary cilia and dopaminergic neuroprotection in pathogenic LRRK2-driven and idiopathic Parkinson’s disease” (doi: 10.1073/pnas.2402206121)
Seurat version 3 was used for single-cell analysis, applying quality control steps to remove outliers and potential multiplets. Scripts and data are available on Dryad (https://doi.org/10.5061/dryad.pk0p2ngvp).
ASAP CRN Cloud Release Notes – Version 4.0.0
ASAP CRN Cloud released version 4.0.0 with expanded datasets including Human Postmortem-derived Brain Sequencing and Mouse datasets. New harmonized collections and individual datasets were added, enhancing research possibilities.
BrainLysoAtlas
Summary: Research by Ghoochani et al. presents a code repository linked to their study on brain lysosomes, identifying SLC45A1-related disease as a lysosomal disorder.
Lysosomal Brain Protein Atlas Interactive Browser
A web tool hosts a proteomic atlas for cell-type-specific queries on LysoIP protein abundance, comparisons, and annotations. Accessible at https://brainresilience.stanford.edu/lysosomal-brain-protein-atlas without login.
