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Table of Contents
Multiomics analysis for dementia
Objectives
Determine biomarkers for Alzheimer's and other neurodegenerative diseases using comprehensive analysis of multi-omics data including genomics, epigenomics, metabolomics, proteomics, etc.
Data
Large cohorts with phenotype data on dementia are available through:
- The Cohorts for Heart and Aging Research in Genomic Epidemiology (CHARGE) Consortium.
- Exome Sequencing Project (ESP), richly-phenotyped for heart, lung and blood disorders.
- Alzheimer's Disease Sequencing Project (ADSP), WES and WGS of thousands of AD and control samples.
- Allen Brain Atlases has many different downloadable data types, but from a few mouse and human samples. RNA-Seq data of hundreds of dementia cases.
- The Alzheimer's Disease Neuroimaging Initiative (ADNI) has genetic and imaging data of 1-3 K samples.
- The Image and Data Archive (IDA) contains mostly image data on 43,290 subjects from 119 studies.
- Several studies share their data through Accelerating Medicines Partnership - Alzheimer's Disease (AMP-AD) including:
- The Adult Changes in Thought (ACT) measured ~4K proteins in ~50 brains and performed WGCNA. Also, proteome data in BLSA (~100 brains), Banner (~200), and UPPpilot (~200).
- CHDWB and HBTRC, each has a gene expression profile from ~500 brains, MC-CAA (75), MCADGS (~100 RNA-Seq and GWAS samples).
- The Mount Sinai Brain Bank (MSBB) includes proteome and gene expression profiles from hundreds of samples.
- The MayoRNAseq includes WGS and RNA-Seq data from 275 Cerebellum (CBE) and 276 Temporal cortex (TCX) samples.
- The Religious Orders Study and Memory and Aging Project (ROSMAP) is the richest dataset in AMP-AD in terms of variety of data types, which include gene expression, genome, proteome, metabolome, and image data. Also, DNA methylation, miRNA, WGS, WES, and even H3K9Ac are available for ~1K samples. The dataset is very well documented.
Collaborators
Dr. Sudha Seshadri, the Founding Director of The Glenn Biggs Institute for Alzheimer's & Neurodegenerative Diseases, and Dr. Claudia Satizabal.
Subprojects
Network analysis on proteome data of Fremingham cohort
Related work
1- An interactive timeline of Alzheimer's disease by AlzForum.