MiGA study info
The Microglia Genomic Atlas (MiGA) uses brain tissue from the Netherlands Brain Bank (NBB) and the Neuropathology Brain Bank and Research CoRE at Mount Sinai Hospital. The Ethical Committee of the VU University Medical Center (Amsterdam) and the Mount Sinai Institutional Review Board approved collection of the human brain material. NBB obtained informed consent from each donor before death for autopsy and for research use of brain tissue and clinical information.
Access
Controlled access. Request data access for MiGA on the AD Knowledge Portal; you need a Synapse account. See How to get the data.
| Where | ID | Access | What you get |
|---|---|---|---|
| Synapse | syn69670592 | Controlled | Files described below |
Other Synapse IDs on this page syn69670597 syn69670600 syn69865816
pip install synapseclient
synapse login
synapse get -r syn69670592- PI : Dr. Towfique Raj
- Institution : Icahn School of Medicine at Mount Sinai
- Grant_number : NIA R21-AG063130, NIA R01-AG054005, NIA U01-AG068880, NIA R56-AG055824
- Contact_person : Dr. Towfique Raj, towfique.raj@mssm.edu
- Publication : doi: 10.1101/2020.10.27.356113 // PMID: 34992268 (Lopes et al., Nat Genet 2022)
- Acknowledgement : We thank members of the Raj and de Witte labs for their feedback on the manuscript. This work was supported by grants from the US National Institutes of Health (NIH NIA R21-AG063130, NIA R01- AG054005, NIA U01-AG068880, and NIA R56-AG055824). This work was supported in part through the computational and data resources and staff expertise provided by Scientific Computing at the Icahn School of Medicine at Mount Sinai. Research reported in this paper was supported by the Office of Research Infrastructure of the National Institutes of Health under award number S10OD026880. The authors thank Michael Chao for his assistance with genotyping QC. The authors thank the teams of the Netherlands Brain Bank and the Mount Sinai Neuropathology Brain Bank and Research CoRE for their services. We thank the study participants for their generous gifts of brain donation. The microglia were isolated through the efforts of a large team and we would like to thank Manja Litjens, Roland D. van Dijk, Alba Fernández-Andreu, Paul R. Ormel, Hans C. van Mierlo, Y. He, Stephanie Gumbs, Miriam E van Strien, Saskia Burm, Vanessa Donega, and Elly M. Hol for all their contributions to this effort. Gijsje Snijders was supported through ZonMw and the foundation “De Drie Lichten” in the Netherlands. Elisa Navarro was supported by Ramon Areces fellowship.
- Study_name : Microglia Genomic Atlas
- Study_Description : An analytical approach to building the most comprehensive resource to date of cis-genetic effects on the microglial transcriptome and proposing underlying molecular mechanisms of potentially causal functional variants in several brain disorders.
- Dataset_name : MiGA
- Dataset_Description : A genetic and transcriptomic resource comprised of 255 primary human microglia samples isolated ex vivo from four different brain regions of 100 human subjects with neurodegenerative, neurological, or neuropsychiatric disorders, as well as unaffected controls.
- Disease : neurodegenerative, neurological, and neuropsychiatric disorders
Contact
Travyse Edwards
QTL analyses
The FunGen-xQTL flagship paper used MiGA in one xQTL analysis.
| Dataset | Modality | QTL file |
|---|---|---|
| Brain microglia RNA-seq | eQTL | MiGA_brain_expression_qtl |
The flagship analyses of this dataset are fine-mapping (syn69670592), TWAS models (syn69670600), and colocalization (syn69670597 and syn69865816).