Jun 17, 2024
SynGO analysis
- 1Northwestern University, Aligning Science Across Parkinson's (ASAP) Collaborative Research Network, Chevy Chase, MD 20815
Protocol Citation: Chuyu Chen 2024. SynGO analysis. protocols.io https://dx.doi.org/10.17504/protocols.io.x54v92r94l3e/v1
License: This is an open access protocol distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited
Protocol status: Working
We use this protocol and it's working
Created: June 17, 2024
Last Modified: June 17, 2024
Protocol Integer ID: 101946
Keywords: ASAPCRN
Funders Acknowledgement:
Aligning Science Across Parkinson's [ASAP-020600] through the Michael J. Fox Foundation for Parkinson's Research (MJFF)
Grant ID: ASAP-020600
Abstract
synapse function and gene enrichment analysis
SynGO analysis
SynGO analysis
Convert mouse Gene ID to human genes symbols with ID conversion tool
Copy converted genes symbols to the SynGO input section, select background as brain expressed, and name the experiment in the description
Start analysis and export data to Excel files
Open custom color-coding of SynGO ontologies
Provide GO term ID and -log10(GSEA 'gene cluster' FDR corrected p-value) in the input section, label for figure legend, and three values to create a color gradient suitable for the data.
Open a color-picker to change the color-coding of the data
Download figures