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.
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Output Type
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Program
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CRN Team Name
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Custom Phyton scripts related to Bouabid, S. et al (2025) “Distinct spatially organized striatum-wide acetylcholine dynamics for the learning and extinction of Pavlovian associations””
Phyton scripts written by Safa Bouabid and adapted from Han Lab for reading 2D treadmill ball velocity with Raspberry Pi.
Custom MATLAB scripts related to Bouabid, S. et al. (2025) “Distinct spatially organized striatum-wide acetylcholine dynamics for the learning and extinction of Pavlovian associations”
MATLAB scripts written by Safa Bouabid to analyse ACh release dynamics, DA release, glutamate release onto cholinergic interneurons, and behavioural changes in mouse striatum during learning and extinction of Pavlovian associations.
Custom scripts related to Graziano, M. et al. (2025) “A molecular atlas of cell-type specific signatures in the parkinsonian striatum”
Scripts by Graziano and Masarapu aid in analyzing single-nucleus RNA sequencing data from Parkinson's Disease striatum, mapping vulnerabilities, and inferring cell trajectories. Giacomello Lab scripts are available on GitHub.
Pipeline and MATLAB scripts for micro-CT-based fiber localization
Pipeline and MATLAB script for micro-CT-based method for precise fiber localization and atlas alignment after performing micro-fiber photometry in behaving mice.
Preprocessing pipeline to establish and extract data from ROIs from multifiber photometry movies
Pipeline and code are available for imaging data preprocessing using a micro-fiber array approach to measure and manipulate local dynamics in mice, allowing study of cell-specific signals in 3-D volumes.
R scripts associated with SpatialBrain.org
All original R code written to analyse results shown in SpatialBrain.org and Kilfeather & Koo et al. (2024) "Single-cell spatial transcriptomic and translatomic profiling of dopaminergic neurons in health, aging, and disease".
Custom G-code used to jet-print microfluid-walled dumbbells
All original G-code used to jet-print the microfluid-walled dumbbells described in Nebuloni, F. et al. (2024) study.
Custom Python and MATLAB scripts related to Stedehouder & Roberts (2024) “Rapid modulation of striatal cholinergic interneurons and dopamine release by satellite astrocytes”
Scripts by Jeffrey Stedehouder, Stefania Vietti-Michelina & Professor Kevin McGerty to analyse and plot FCV, patch-clamp, and GRAB sensor imaging experiments in ex vivo mouse brain slices, and to model the distance between cell types.
Custom MATLAB scripts related to Zhang, Y. et al (2025) “An axonal brake on striatal dopamine output by cholinergic interneurons”
MATLAB scripts written by Yan-Feng Zhang to predict how nicotinic receptors impact on dopamine transient in vivo during the dynamic tonic and multiphasic activity in cholinergic interneurons.
