shoebridges/asap_phosphosites: Preview release
By savannah onData associated with publication, "Unconventional Initiation of PINK1/Parkin Mitophagy by Optineurin."
Regulatory imbalance between LRRK2 kinase, PPM1H phosphatase, and Arf6 GTPase disrupts the axonal transport of autophagosomes
By savannah onThese findings support a model where a regulatory imbalance between LRRK2-hyperphosphorylated RABs and ARF6 induces an unproductive “tug-of-war” between dynein and kinesin, disrupting processive autophagosome transport. This disruption may contribute to PD pathogenesis by impairing the essential homeostatic functions of axonal autophagy.
Datasets and key resources used in Do, Quyen B. et al. (2023) – Early striatal hyperexcitability in an in vitro human striatal microcircuit model carrying the Parkinson’s GBA-N370S mutation
By savannah onThe results highlight the unique utility of modelling striatal neurons in a modular and highly physiological circuit which is essential to reveal mechanistic insights of the loss of electrical functional integrity in the striata of GBA1 PD patients.
Global Parkinson’s Genetics Program Data Release 5
By savannah onThis release includes 7,462 additional new complex disease participants and 487 new monogenic disease participants, adding to the previous releases from the Complex and Monogenic Networks.
Proteomic data reported in doi.org/10.1073/pnas.2219953120 (Golgi-IP, a tool for multimodal analysis of Golgi molecular content)
By savannah onProteomic data associated with doi.org/10.1073/pnas.2219953120 deposited in ProteomeXchange PRIDE repository with PID: PXD038046.
Time to LiD GWAS dataset
By savannah onGWAS dataset derived on the study of LiD genetic determinants together with README. Code used to generate this GWAS file can be accessed at https://doi.org/10.5281/zenodo.7794491
Primary data associated with the manuscript “Genome wide screen reveals Rab12 GTPase as a critical activator of pathogenic LRRK2 kinase” (doi: 10.1101/2023.02.17.529028)
By savannah onPrimary data associated with the manuscript "Genome wide screen reveals Rab12 GTPase as a critical activator of pathogenic LRRK2 kinase." These include raw immunoblotting data (annotated .tiff exports of Image Studio Lite Licor scans) and their quantitation (.xlsx files) and graphs obtained using GraphPad Prism (.pzf files) for the indicated figures.
Glucocerebrosidase, a Parkinson´s disease-associated protein, is imported into mitochondria and regulates complex I assembly and function
By savannah onRaw data files used for the manuscript "Glucocerebrosidase, a Parkinson´s disease-associated protein, is imported into mitochondria and regulates complex I assembly and function." https://www.researchsquare.com/article/rs-1521848/v1
A prebiotic diet modulates microglia response and motor deficits in α-synuclein overexpressing mice (Dataset)
By savannah onThese studies uncover a novel microglia-dependent interaction between diet and motor symptoms in mice, findings that may have implications for neuroinflammation and PD.
The mass spectrometry proteomics data associated of TauRD-Y interactome from TauRD-Y and TauRD-Y* cells
By savannah onThe mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium via the PRIDE84 partner repository with the dataset identifier PXD023400. Associated with the following preprint: Saha et al., 2022 (published on biorxiv on February 19, 2022). https://www.biorxiv.org/content/10.1101/2022.02.18.481043v1.full
Structure of wild-type PPM1H phosphatase at 3.1 Angstrom resolution
By savannah onStructure of wild-type PPM1H phosphatase at 3.1 Angstrom resolution (as reported in 10.15252/embr.202152675) deposited in the Protein Data Bank with code 7KPR.
Structure of PPM1H phosphatase with manganese ions at the active site
By savannah onStructure of PPM1H phosphatase with manganese ions at the active site (as reported in 10.15252/embr.202152675) deposited in the Protein Data Bank with code 7N0Z.
Crystal structure of a substrate-trapping variant of PPM1H phosphatase
By savannah onCrystal structure of a substrate-trapping variant of PPM1H phosphatase (as reported in 10.15252/embr.202152675) deposited in the Protein Data Bank with code 7L4I.
Crystal structure ATG9 HDIR in complex with the ATG13:ATG101 HORMA dimer
By savannah onExperimental Data Snapshot Crystal structure ATG9 HDIR in complex with the ATG13:ATG101 HORMA dimer PDB DOI: 10.2210/pdb8DO8/pdb Classification: SIGNALING PROTEIN Organism(s): Homo sapiens Expression System: Homo sapiens Mutation(s): No Deposited: 2022-07-12 Released: 2022-11-23 Deposition Author(s): Buffalo, C.Z., Ren, X., Yokom, A.L., Hurley, J.H. Funding Organization(s): Other private Method: X-RAY DIFFRACTION Resolution: 2.41 Å R-Value Free: 0.251 R-Value Work: 0.204 R-Value Observed: 0.205
Transcriptional analysis of peripheral memory T cells reveals Parkinson’s disease-specific gene signatures – Gene Validation FCS
By savannah onFCS files corresponding to the gene validation experiment described in "Transcriptional analysis of peripheral memory T cells reveals Parkinson’s disease-specific gene signatures."
Axonal and somatodendritic proteomes of dopamine neurons in the mouse brain
By savannah onThe elaborate cytoarchitecture of DA neurons is embedded within complex brain tissues, making it difficult to access the DA neuronal proteome using conventional methods. This mass spectrometry proteomics dataset is a part of "Subcellular proteomics of dopamine neurons in the mouse brain" (Hobson et al., 2022).
Transcriptional analysis of peripheral memory T cells reveals Parkinson’s disease-specific gene signatures – Cell Surface FCS
By savannah onFCS files corresponding to the cell surface experiment described in "Transcriptional analysis of peripheral memory T cells reveals Parkinson’s disease-specific gene signatures."
Primary data associated with the manuscript “Golgi-IP, a novel tool for multimodal analysis of Golgi molecular content” (doi.org/10.1101/2022.11.22.517583)
By savannah onRaw data files used for the manuscript "Golgi-IP, a novel tool for multimodal analysis of Golgi molecular content" (doi.org/10.1101/2022.11.22.517583).
Transcriptional analysis of peripheral memory T cells reveals Parkinson’s disease-specific gene signatures – Fluorospot SFC
By savannah onFluorospot SFC (combined IFNg, IL-5, and IL-10) data and corresponding HC-PD group IDs described in "Transcriptional analysis of peripheral memory T cells reveals Parkinson’s disease-specific gene signatures."
ENS quantification
By savannah onLabelled enteric neurons in living mice with recombinant adeno-associated viruses (rAAVs) expressing fluorescent proteins, and used tissue clearing techniques to enhance visualization of intact GI tissue.
