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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Theme
Copica, an open-source easy-to-use protein copy number mass spectrometry database
Advances in mass spectrometry allow profiling proteome with 10 ng material. Copica database aids in analyzing and comparing protein abundance in cells and tissues, highlighting specific proteins and enabling easy comparison of datasets.
CURTAIN, A WEB-BASED TOOL FOR DATA VISUALIZATION AND EXPLORATION OF MASS SPECTROMETRY-BASED PROTEOMICS
Curtain is a tool for sharing, visualizing, and analyzing mass spectrometry data, designed for non-experts. It allows easy data sharing via web links and displays differential analysis results in interactive plots.
CURTAIN-PTM, A WEB-BASED TOOL FOR DATA VISUALIZATION AND EXPLORATION OF MASS SPECTROMETRY-BASED PROTEOMICS (POST TRANSLATIONAL MODIFICATIONS)
Curtain is a tool for sharing, visualizing, and analyzing proteomic and PTM MS data. It allows easy sharing of data via web link, displays results in interactive plots, and enables analysis of protein groups and structure. Free and open-source.
Cactus
Cactus (10.5281/zenodo.7351087) manages session data for curtain and curtainptm backends, handling saving and loading operations efficiently.
CXCL1 supplementation on iPSC-Derived Midbrain Neurons
The protocol studies the impact of different levels of recombinant human CXCL1 on midbrain neurons from iPSCs using conditioned media from ATP13A2WT astrocytes.
Bulk RNA-seq Protocol for Astrocytes
Protocol for RNA extraction from astrocytes for bulk RNA sequencing to analyze gene expression profiles.
ATAC-seq Protocol for Astrocytes
ATAC-seq Protocol for Astrocytes
Bisulfite-seq for Astrocytes
Bisulfite-seq for Astrocytes
SAM ELISA
Protocol for preparing cell lysates and conducting ELISA to quantify proteins is outlined.
CXCL1 ELISA
Protocol for ELISA includes sample prep & assay to quantify antigens in biological samples.
Fluorescently labeled polyamine uptake (via confocal microscopy)
Method visualizes polyamine uptake in cells with fluorescently labeled polyamines & confocal microscopy.
Fluorescently labeled polyamine uptake (via flow cytometry)
Supplemental video in ASAP Protocol Particulars series provides extra context and tips from protocol authors for Aligning Science Across Parkinson's project.
Human Induced Pluripotent Stem Cell (hiPSC) Culture and Passaging Protocol
Protocol for hiPSC maintenance and passage using Geltrex-coated plates and StemFlex medium for optimal growth and reduced differentiation.
Differentiation of iPSCs into NGN2 Neurons Protocol
Protocol uses doxycycline to induce neurogenin 2 in iPSCs for neuron differentiation, aiding research on neuronal development and function.
Protocol for Dissociation and Culture of Midbrain Astrocytes and Neurons
Protocol for isolating and culturing midbrain astrocytes and neurons in specific ratios to preserve viability and differentiation potential for future research purposes.
