Single-cell-RNA-seq-of-the-CRISPR-engineered-endogenous-tauopathy-model
By onArchived Analysis code supporting the study “Transcriptional programs mediating neuronal toxicity and altered glial–neuronal signaling in a Drosophila knock-in tauopathy model.”
TheDongLab/AI2AMP-PD: AI2AMP-PD v1.0
By onAnalysis code to built a novel multi-omics machine learning model to predict PD diagnosis.
G code: 3D bioprinting of human neural tissues with functional connectivity
By onThis is he G code related to the publication Yan et al. 2024 3D bioprinting of human neural tissues with functional connectivity
ASE_Plots
By onA repo with many of the scripts used for downstream analysis in our paper and for making figures.
Code related to Health phenome of Parkinson’s patients reveals prominent mood-sleep cluste
By onThis entry contains the code used in the publication "Health phenome of Parkinson's patients reveals prominent mood-sleep cluster ".
Custom scripts related to Qiao, Q. et al. (2026) 5-HT4 Receptor Ligand RS67333 Modulates Striatal Acetylcholine and Dopamine Release via the Inhibition of Acetylcholinesterase
By onThis repository contains scripts to analyse and plot data obtained from Fast-scan Cyclic Voltammetry (FCV) experiments and GRAB sensor imaging in ex vivo mouse brain slices.
Custom scripts related to Bouabid & Vu et al. (2026) “An anatomical hotspot for striatal dopamine-acetylcholine interactions during reward and movement”
By onThese scripts were custom-written by Mai-Anh Vu, except where indicated otherwise, to analyze the data in Bouabid & Vu et al. (2026) An anatomical hotspot for striatal dopamine-acetylcholine interactions during reward and movement.
Code for a-synuclein spread: Molecular analysis of network vulnerability to α-synuclein pathology reveals PAKs as therapeutic targets for Parkinson’s disease
By onCode to reproduce network analyses and a-synuclein pathology progression plots in "Molecular analysis of network vulnerability to α-synuclein pathology reveals PAKs as therapeutic targets for Parkinson's disease".
Code: Python + R analysis code for Belal et al. ‘Cholinergic interneuron control of GABAergic circuits targeting spiny projection neurons is disrupted in parkinsonian models’
By onInitial public release of the analysis code and documentation for the Belal et al. 2026 study. This repository is intended to reproduce the analyses and figure-generation workflows associated with the manuscript.
Python code: NHP rendering
By onAnnotated Python package for NHP image processing and visualization.
Python code: Lightsheet Alignment
By onCode used to align a moving light-sheet specimen to a fixed reference through their autofluorescence (AF) channels.
Python code: rendering mouse atlas
By onThis script extracts STN and PSTN from an Allen CCF annotation volume and produces smoothed VTK meshes and an orthographic rotation series.
Python code: rendering NHP atlas
By onThis script reconstructs bilateral rhesus macaque STN and PSTN surfaces from digitized serial Paxinos contours.
cookeR
By onAn open-source and low-overhead commandline tool and Golang library for installing and managing portable R installation for headless or server-based usage.
Contort
By onAn open-source alternative web-based user interface for the protein conservation evaluation pipeline ConSurf.
Code for Murray et al. 2026 (Prolonged Timescales) Manuscript
By onSource code to replicate core analyses used throughout the Murray et al. 2026 (Prolonged Timescales) manuscript.
Data and code for Stasiak et al. 2026 (TREV-Emotion) Manuscript
By onOnline repository for the data and scripts used in the Stasiak et al., 2026 preprint on TREV-derived cardiac contractility in threat anticipation contexts.
FushikiA_etal_2024: PD Model Mice Study – v1.0 Code
By onRepository offers tools for processing, analyzing, and visualizing data related to PD and dopaminergic neurons.
Code for Miller-Hansen article “Thalamus orchestrates local acetylcholine-dependent dopamine release in the learning striatum”
By onThis is the code generated by Miller-Hansen for analyzing output from Guppy.
Mathematica code for Astrocytes mediate the dopaminergic modulation of tonic GABAergic signaling in substantia nigra
By onMathematica notebook containing functions used to measure spikerates, draw histograms, and extract current traces from Clampfit raw data exports.
