yelee03153/Striatopallidalsynapse: Code release for 'Distinct modes of dopamine modulation on striatopallidal synaptic transmission'

📄 Reference This is the official code and data repository for the following preprint: Title: Distinct modes of dopamine modulation on striatopallidal synaptic transmission Authors: Youngeun Lina Lee, Maria Reva, Ki Jung Kim, Hyun-Jin Kim, Yemin Kim, Eunjeong Cho, Minseok Jeong, Youngjong Kwak, Kyungjae Myung, Yulong Li, Seung Eun Lee, Dong Pyo Jang, C. Justin Lee, Christian Lüscher, and Jae-Ick Kim Journal: AIP in Nature Communications (2026) 🔬 Overview This initial release (v1.0.0) provides the comprehensive analytical pipelines and computational modeling frameworks utilized to investigate the region-specific dopaminergic modulation of striatopallidal synapses. The repository integrates both MATLAB and Python environments to process complex electrophysiological, imaging, and computational datasets, ensuring the full reproducibility of the quantitative descriptions presented in the manuscript. 📊 Key Modules & Features The repository is structurally organized into specific analytical domains corresponding to the experimental methodologies: Striatopallidal synapse analysis_IHC/ (MATLAB) Contains automated and semi-automated scripts for quantitative immunohistochemistry (IHC) image analysis. Includes modules for evaluating the precise spatial colocalization of synaptic markers (e.g., Bassoon, Synaptophysin) with specific receptors (D2R, GABAaR) and projection-specific fluorophores (GFP/RFP). Quantal Clustering Analysis/ & H clustering analysis/ (MATLAB) Provides the analytical framework for recursive k-means and hierarchical (H) clustering algorithms. Facilitates the processing of miniature EPSC (mEPSC) quantal events and nearest-neighbor distance (NND) calculations to systematically map the functional architecture of D2R/D4R distribution across GPe subregions. Calcium imaging/ (MATLAB) Analytical pipelines for processing and quantifying axon terminal Ca2+ transients following selective optogenetic stimulation. modeling/ (Python) Features computational models simulating presynaptic and postsynaptic dopamine modulation dynamics. Processes paired-pulse ratio (PPR) traces under various pharmacological conditions (e.g., CdCl2, Quinpirole, D2R/D4R specific agonists) and DA depletion (6-OHDA) models. Note: Requires dependencies listed in requirements.txt. 🛠 Installation & Usage MATLAB Scripts: Execute the main .m files within their respective directories. Ensure the required sample data files (provided in data/ subfolders) are correctly pathed. Python Models: Navigate to the modeling/ directory and install the necessary environment via pip install -r requirements.txt. Execute the simulation pipeline starting with scripts/main.py.