Output Catalog
ASAP is committed to accelerating the pace of discovery and informing a path to a cure for Parkinson’s disease through collaboration, research-enabling resources, and data sharing. We’ve created this catalog to showcase the research outputs and tools developed by ASAP-funded programs.
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Output Type
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Program
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CRN Team Name
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Theme
Collection of protocols of Team Deleidi used in the publication: “”LRRK2 kinase activity regulates GCase level and enzymatic activity differently depending on cell type in Parkinson’s disease””
Collection of protocols of Team Deleidi used in the publication: ""LRRK2 kinase activity regulates GCase level and enzymatic activity differently depending on cell type in Parkinson’s disease""
Available ASAP-related hPSC collection from Team Studer
Collection of human pluripotent stem cell lines consisting of isogenic GBA, LRRK2, SNCA series, KI-reporter lines for TOMM20, b-actin, LAMB1, LAMP1, a-synuclein overexpression lines, and other hPSC resources.
Human Postmortem-Derived Brain Sequencing Collection (Harmonized Collection)
The Human Postmortem-derived Brain Sequencing Collection is a harmonized repository comprised of sequencing data contributed by ASAP CRN teams.
Collection of protocols for paper: “Glucocerebrosidase, a Parkinson´s disease-associated protein, is imported into mitochondria and regulates complex I assembly and function”
This is a collection of protocols used in a recent preprint by the Deleidi Lab, Team Schapira. You can access pre-print at https://doi.org/10.21203/rs.3.rs-1521848/v1
H9 ES AAVS1-NGN2 FLAG-EEA1
ES cells were modified to create iNeurons expressing EEA1 with a 3xFLAG tag. NEUROG2 was introduced at the AAVS1 locus using CRISPR/Cas9. The cells are derived from human embryonic stem cells at the blastocyst stage.
KOLF2.1 iPSCs AAVS1-NGN2
iPSCs from British Caucasian male, modified with NEUROG2 using CRISPR/Cas9 in AAVS1 locus. Contains mutations in ARID2 (p.Pro197Hisfs*12) and COL3A1 (p.Gly1176Ser). Derived from skin fibroblasts of a 55-59-year-old male.
H9 ES AAVS1-NGN2 3xFLAG-EEA1 TMEM192-3xHA
ES cells were modified to create iNeurons expressing EEA1 with a 3xFLAG tag and TMEM192 with 3xHA tag. NEUROG2 was introduced at the AAVS1 locus using CRISPR/Cas9. The cells are derived from human embryonic stem cells at the blastocyst stage.
KOLF2.1 iPSCs AAVS1-NGN2 ATG12-/-
Summary: iPSCs lacking autophagy factor ATG12 used to generate iNeurons from KOLF2.1 iPSCs with NEUROG2 introduced using CRISPR/Cas9 in AAVS1 safe harbor locus.
H9 ES AAVS1-NGN2 GRN-/-
H9 ES cells modified using CRISPR/Cas9 lack GRN gene and express NEUROG2 in AAVS1 safe harbor locus. Derived from human blastocyst, these embryonic stem cells can differentiate into iNeurons.
Cell line construction and maintenance for Lyso-IP with or without genes linked with lysosomal storage disease
Associated with the following preprint (published September 30th 2021): Progranulin deficiency results in reduced bis(monoacylglycero)phosphate (BMP) levels and gangliosidosis Sebastian Boland, Sharan Swarup, Yohannes A. Ambaw, Ruth C. Richards,…
Workflow for proteomic analysis of purified lysosomes in cells lacking GRN V.3
Associated with the following preprint (published September 30th 2021): Progranulin deficiency results in reduced bis(monoacylglycero)phosphate (BMP) levels and gangliosidosis Sebastian Boland, Sharan Swarup, Yohannes A. Ambaw, Ruth C. Richards,…
Immunological detection of autophagy and mTORC1-related proteins
A general protocol for immunological detection by Western blotting MTOR, MTOR (pS2448), ULK1, ULK1 (pS757), p70S6K, p70S6K (pT389), SQSTM1, CALCOCO2, MAP1LC3B, GABARAP, TFEB, TFE3, PGRN, HSP90, and PCNA.
UniProtExtractR: an app and R package for easily extracting protein-specific UniProtKB information and fine-tuning organelle resolution
UniProtExtractR is an app and R package that simplifies extracting protein entry information from UniProtKB, offering interactive tables and custom organelle-level resolution. It is user-friendly and freely accessible online.
Scripts for snRNAseq data analysis
Scripts 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.
BugSigDB – Parkinson’s Disease
A Comprehensive Database of Published Microbial Signatures in PD
