Preparation of an Enriched Synaptic Vesicle Fraction
By onProcedure for preparing enriched synaptic vesicle fractions used in "Serine-129 phosphorylation of α-synuclein is an activity-dependent trigger for physiologic protein-protein interactions and synaptic function."
Preparation of brain and Neuro2A lysates for biochemical assays and evaluation
By onProcedure for preparing brain and Neuro2A lysates for biochemical assays and evaluation used in "Serine-129 phosphorylation of α-synuclein is an activity-dependent trigger for physiologic protein-protein interactions and synaptic function."
In vitro phosphorylation
By onProcedure for in vitro phosphorylation used in "Serine-129 phosphorylation of α-synuclein is a trigger for physiologic protein-protein interactions and synaptic function"
In vitro dephosphorylation
By onProcedure for in vitro dephosphorylation used in "Serine-129 phosphorylation of α-synuclein is an activity-dependent trigger for physiologic protein-protein interactions and synaptic function."
Proteome analysis
By onProcedure for proteome analysis used in "Serine-129 phosphorylation of α-synuclein is a trigger for physiologic protein-protein interactions and synaptic function"
Liquid Chromatography with Tandem Mass Spectrometry (LC-MS/MS)
By onProcedure for Liquid Chromatography with Tandem Mass Spectrometry (LC-MS/MS) used in "Serine-129 phosphorylation of α-synuclein is a trigger for physiologic protein-protein interactions and synaptic function"
Proteomics: On-bead/in-solution digestion and phosphopeptide enrichment
By onProcedure for On-bead/in-solution digestion and phosphopeptide enrichment used in "Serine-129 phosphorylation of α-synuclein is a trigger for physiologic protein-protein interactions and synaptic function"
ColabFold Protein Structure Prediction and Membrane Interaction Modeling
By onProcedure for ColabFold protein structure prediction and membrane interaction modeling used in "Serine-129 phosphorylation of α-synuclein is a trigger for physiologic protein-protein interactions and synaptic function"
Multi-electrode array (MEA)
By onProcedure for multi-electrode array used in "Serine-129 phosphorylation of α-synuclein is a trigger for physiologic protein-protein interactions and synaptic function"
TX2P – Transcript to protein
By onTX2P automates mass spectrometry data integration in long-read RNA-sequencing by predicting open reading frames, translating them into peptides, and searching for proteins in mass spec datasets with MetaMorpheus.
Multiple Sequence Alignment
By onProcedure for multiple sequence alignment used in "Serine-129 phosphorylation of α-synuclein is a trigger for physiologic protein-protein interactions and synaptic function"
Day2023 supplementary dataset
By onDatasets for all supplementary figures S1-4 in GABAergic regulation of striatal spiny projection neuron excitability depends upon their activity state (2023).
Day2023 dataset
By onDatasets for all figures 1-8 in: GABAergic regulation of striatal spiny projection neuron excitability depends upon their activity state. Image is taken from Fig 1B inset and illustrates RiboTag-eGFP in SPNs of the striatum.
Day2024 R code and analysis
By onThis script and accompanying folder should reproduce figures 1-4 and supplementary figure S1 of the manuscript in GABAergic regulation of striatal spiny projection neuron excitability depends upon their activity state (2023).
pLP201_pCCL_EFSp_GreenLantern_WPRE
By onpLP201_pCCL_EFSp_GreenLantern_WPRE fluorescent reporter plasmid
Neuropathological assessment of the olfactory bulb and tract in individuals with COVID-19
By onThe authors concluded that after a fatal course of COVID-19, microscopic changes, when present, in the rostral, intracranial portion of the olfactory circuitry generally reflected neurodegenerative processes seen elsewhere in the brain.
Response to: “Is Gauchian genotyping of GBA1 variants reliable?”
By onWe recently described two methods for GBA1 analysis, which is hampered by the adjacent highly homologous pseudogene: Gauchian, a novel algorithm for analysis of short-read WGS, and targeted long-read sequencing 1. Tayebi et al have applied the former to WGS from 95 individuals, and compared it to Sanger sequencing 2. They report concordant genotypes in 85, while 11 had discrepant calls (we note that this leads to a total of 96). In addition, they report 28 false Gauchian calls in 1000 Genomes Project (1kGP) samples. Gauchian was developed because the homology of the GBA region requires a short read variant caller that does not rely solely on read alignments, and can identify specific variants known to be pathogenic. To understand the cause of these discrepancies, we reviewed their data, and conclude that they are mis-interpreting Gauchian results in 8 of the 11 discrepant samples, and incorrectly using Gauchian to analyze low-coverage 1kGP samples.
Persistent Hyposmia as Surrogate for α-Synuclein-Linked Brain Pathology
By onThe authors identified significant age- and posit that simple-to-administer, quantitative smell tests could serve as inexpensive screening tools in future population studies for the identification of α-synuclein-related brain disorders, including PD
