APOE2 attenuates APOE4-associated amyloid pathology and related toxicity
- Chen, Kai1
- Chen, Yixing1
- Ren, Yingxue2
- Wang, Zhen3
- Huang, Ya3
- Pan, Meixia4
- Li, Zonghua1
- Casey, Monica Castanedes1
- Qiao, Wenhui1
- Shi, Ji5
- Kong, Dehui6, 7
- Xhafkollari, Gisela1
- Santhakumar, Hannah1
- Wetmore, Allison M.1
- Thompson, E. Aubrey5
- Wang, Xusheng6, 7
- Dickson, Dennis W.1
- Holtzman, David M.8
- Bu, Guojun1, 9
- Han, Xianlin4
- Peng, Junmin3
- Zhao, Na1
- 1. Department of Neuroscience, Mayo Clinic, Jacksonville, FL, 32224, USA
- 2. Department of Quantitative Health Sciences, Mayo Clinic, Jacksonville, FL, USA
- 3. Departments of Structural Biology and Developmental Neurobiology, St. Jude Children's Research Hospital, Memphis, TN, 38105, USA
- 4. Barshop Institute for Longevity and Aging Studies, University of Texas Health Science Center at San Antonio, San Antonio, TX 78229, USA
- 5. Department of Cancer Biology, Mayo Clinic, Jacksonville, FL, 32224, USA
- 6. Department of Neurology, University of Tennessee Health Science Center, Memphis, TN, 38163, USA
- 7. Department of Genetics, Genomics and Informatics, University of Tennessee Health Science Center, Memphis, TN, 38163, USA
- 8. Department of Neurology, Hope Center for Neurological Disorders, Knight Alzheimer's Disease Research Center, Washington University in St. Louis, St. Louis, MO, 63110, USA
- 9. Division of Life Science, The Hong Kong University of Science and Technology, Hong Kong, China
Description
This repository contains the analysis scripts used in the study investigating the effects of heterozygous APOE genotypes in a 5xFAD mouse model of amyloid pathology. The study examines how APOE2 and APOE4 influence amyloid deposition, glial responses, proteomic profiles, and lipidomic alterations, with particular focus on whether APOE2 is associated with attenuation of APOE4-related pathological and molecular changes in APOE2/4 mice.
Notes
Nanostring.R: Performs differential expression analyses of NanoString glial gene expression data.
Lipidomics.R: Performs differential lipid analyses of plasma lipidomics data and correlation analyses between lipid levels and Aβ burden.
WGCNA_proteomics.R: Performs weighted gene co-expression network analysis (WGCNA) of proteomics data.
WGCNA_lipidomics.R: Performs weighted correlation network analysis (WGCNA) of plasma lipidomics data.
LinearModel.R: Performs sex-adjusted linear regression analyses to assess APOE genotype effects across multiple outcome measures.
Figures.R: Generates visualizations used in the manuscript figures.
Files
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(45.5 kB)
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Additional details
Dates
- Submitted
-
2026-08-25
Software
- Programming language
- R