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Synapse / AMP-AD Knowledge Portal

Overview

Synapse is an open science platform for storing, sharing, and collaborating on biomedical research data, code, and analyses, operated by Sage Bionetworks. It supports provenance tracking, versioned workflows, DOI assignment for datasets and analyses, and hosts open ML challenges (DREAM Challenges) for method development on biomedical data. It is the primary data sharing infrastructure for several large US-funded multiomics consortia in neuroscience and psychiatry, with AnnData as the standard format for expression data across these resources.

AMP-AD Knowledge Portal

The AMP-AD Knowledge Portal (https://adknowledgeportal.synapse.org) is a dedicated portal for the Accelerating Medicines Partnership for Alzheimer’s Disease, a public-private partnership between NIH, the FDA, and pharmaceutical companies. It hosts multiomics data from postmortem human brain tissue across multiple Alzheimer’s disease cohorts, most of which are openly accessible without a data access committee approval.

Key Neuroscience Datasets

The AMP-AD portal hosts several flagship cohorts:

  • ROSMAP (Religious Orders Study and Memory and Aging Project) is a longitudinal Alzheimer’s cohort with bulk RNA-seq, methylation, proteomics, metabolomics, and spatial transcriptomics.
  • MSBB (Mount Sinai Brain Bank) provides postmortem transcriptomics across multiple brain regions.
  • Mayo RNAseq provides temporal cortex and cerebellum RNA-seq from Alzheimer’s disease cases and controls.

Beyond Alzheimer’s, Synapse hosts:

  • CommonMind Consortium provides brain transcriptomics and epigenomics from schizophrenia, bipolar disorder, and ALS postmortem tissue.
  • PsychENCODE is a multi-omics atlas of the human brain across psychiatric disorders and developmental stages.

Connections

  • Operated by: Sage Bionetworks

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