Code for clinical dataset analysis included in: Persistent Hyposmia as Surrogate for α-Synuclein-Linked Brain Pathology
By Emma Sherrell onCode used for the analysis of clinical data as reported in the study, "Persistent Hyposmia as Surrogate for α-Synuclein-Linked Brain Pathology" in Mollenhauer, Li et al., MedRxiv 2023.
Translating ribosome affinity purification analysis of dopaminergic neurons of the mouse ventral midbrain with age and alpha-synuclein overexpression
By savannah onComparative gene expression profiling analysis of RNA-seq data for DAT-TRAP samples in 3- and 18-month old mice, with and without human alpha-synuclein overexpression.
Preparation of pharmacological agents
By savannah onThis is a description of the preparation of different drugs for use in live animals (in vivo) or in brain slices (ex vivo).
ADP Glo protocol
By savannah onProtocol for ADP Glo (Promega) assay to measure the catalytic activity of the lipid kinase VPS34 on small unilammelar vesicles.
Model building of PI3KC3-C1/RAB1A
By savannah onDetails model building of the PI3KC3-C1/RAB!A complex using chimeraX1.5-1.6 and ISOLDE. Refinement was done using Phenix real space refinement.
Production of GTPase deficient RAB1A(Q70L) protein
By savannah onBacterial expression of the GTPase deficient Q70L mutant of human RAB1A.
Structural conversion of α-synuclein at the mitochondria induces neuronal toxicity; data sets
By savannah onStudy includes various image sets: Duplex-1&2, amyloid fibril, TEM fibril, DLS, SMLM 1&2, CLEM, FIB SEM, live-cell, superoxide, MitoTracker, TMRM, Ca2+, NADH, cell death, Amytracker, cardiolipin, and FRET images.
Code for analysis of smell test dataset included in: Development of a Simplified Smell Test to Identify Patients with Typical Parkinson’s as Informed by Multiple Cohorts, Machine Learning and External Validation
By Emma Sherrell onCode used for the analysis of smell test performance as reported in "Development of a Simplified Smell Test to Identify Patients with Typical Parkinson’s as Informed by Multiple Cohorts, Machine Learning and External Validation," Li et al., 2024.
Structural conversion of α-synuclein at the mitochondria induces neuronal toxicity; image data
By savannah onStructural conversion of α-synuclein at the mitochondria induces neuronal toxicity; image data.
Impaired cortico-amygdala functional connectivity can drive social behavior deficits in synucleinopathies
By Emma Sherrell onThe current study shows dynamic changes in α-synuclein levels in the basolateral amygdala (BLA) circuits, impacting social behavior. Chemogenetic stimulation of cortico-BLA inputs can rescue impaired behavior, suggesting potential therapies.
Raw immunocytochemistry images and quantification of CASR expression from Kilfeather & Khoo et al. (2024), “Single-cell spatial transcriptomic and translatomic profiling of dopaminergic neurons in health, aging, and disease”
By savannah onRaw immunocytochemistry images and quantification of CASR expression in mouse brain slices.
Stereo-seq raw data of the mouse ventral midbrain with age and alpha-synuclein overexpression
By savannah onThis dataset contains four 3-month old mouse samples and four 18-month old mouse samples. Of each group, the genotype of half samples is wild-type while that of the rests is OVX (human alpha-synuclein overexpression).
Motor cortical circuit adaptations in Parkinsonism
By Emma Sherrell onPerspective article on the publication (Chen et al. (2023), Sci Adv). It summarizes the major findings of this research paper and highlights a few potential future directions regarding the motor cortical circuit changes in Parkinsonism.
Calbindin KD mouse – Experimental cross
By savannah onTransgenic mouse model with decreased calb1 expression in DAT-expressing cells.
Cellular senescence: A key therapeutic target in aging and diseases
By Emma Sherrell onThis paper discusses cellular senescence as a therapeutic target in aging and age-related diseases, as well as strategies and recent advances in the development of senotherapeutics targeting senescent cells to treat age-related diseases.
Lysosomal storage disease proteo/lipidomic profiling using nMOST links ferritinophagy with mitochondrial iron deficiencies in cells lacking NPC2
By Emma Sherrell onnMOST workflow quantifies proteomes and lipidomes in LSD mutants, identifying diverse molecular phenotypes. NPC2-/- cells show ferritinophagy defects leading to mitochondrial issues, resolved with iron supplementation.
A neurocomputational view of the effects of Parkinson’s disease on speech production
By Emma Sherrell onThis article reviews the role of cortico-basal ganglia circuits in speech motor learning and execution in Parkinson's disease.
Scripts for snRNAseq data analysis
By Emma Sherrell onScripts for analyzing single nuclei sequencing data from healthy and Parkinson's disease brains include creating a reference database with transposable element annotations and a file for Cell Ranger to produce snRNA count matrices.
Production of α-synuclein preformed fibrils (PFF)
By Emma Sherrell onThis protocol outlines the procedure to produce preformed fibrils (PFF). It has been adapted from Volpicelli-Daley et al., 2014.
