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. 2016 Oct 11:3:160089.
doi: 10.1038/sdata.2016.89.

Human whole genome genotype and transcriptome data for Alzheimer's and other neurodegenerative diseases

Mariet Allen  1 , Minerva M Carrasquillo  1 , Cory Funk  2 , Benjamin D Heavner  2 , Fanggeng Zou  1 , Curtis S Younkin  3 , Jeremy D Burgess  1 , High-Seng Chai  4 , Julia Crook  2 , James A Eddy  2 , Hongdong Li  2 , Ben Logsdon  5 , Mette A Peters  5 , Kristen K Dang  5 , Xue Wang  3 , Daniel Serie  3 , Chen Wang  4 , Thuy Nguyen  1 , Sarah Lincoln  1 , Kimberly Malphrus  1 , Gina Bisceglio  1 , Ma Li  1 , Todd E Golde  6 , Lara M Mangravite  5 , Yan Asmann  2 , Nathan D Price  2 , Ronald C Petersen  7 , Neill R Graff-Radford  8 , Dennis W Dickson  1 , Steven G Younkin  1 , Nilüfer Ertekin-Taner  1   8
Affiliations

Human whole genome genotype and transcriptome data for Alzheimer's and other neurodegenerative diseases

Mariet Allen et al. Sci Data. .

Abstract

Previous genome-wide association studies (GWAS), conducted by our group and others, have identified loci that harbor risk variants for neurodegenerative diseases, including Alzheimer's disease (AD). Human disease variants are enriched for polymorphisms that affect gene expression, including some that are known to associate with expression changes in the brain. Postulating that many variants confer risk to neurodegenerative disease via transcriptional regulatory mechanisms, we have analyzed gene expression levels in the brain tissue of subjects with AD and related diseases. Herein, we describe our collective datasets comprised of GWAS data from 2,099 subjects; microarray gene expression data from 773 brain samples, 186 of which also have RNAseq; and an independent cohort of 556 brain samples with RNAseq. We expect that these datasets, which are available to all qualified researchers, will enable investigators to explore and identify transcriptional mechanisms contributing to neurodegenerative diseases.

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Conflict of interest statement

Below are the disclosures for R.C.P.: Pfizer, Inc., and Janssen Alzheimer Immunotherapy: Chair, Data Monitoring Committee. Hoffman-La Roche, Inc.: Consultant. Merck, Inc.: Consultant. Genentech, Inc.: Consultant. Biogen, Inc.: Consultant. Eli Lilly & Co.: Consultant. N.R.G.-R. has multicenter treatment study grants from Lilly and TauRx and consulted for Cytox. N.E.-T. has consulted for Cytox. The remaining authors declare no competing financial interests.

Figures

Figure 1
Figure 1. Overview of the relationship of the four genomic datasets herein described.
See this image and copyright information in PMC

References

Data Citations

    1. 2016. Synapse. http://dx.doi.org/10.7303/syn2580853 - DOI
    1. Carrasquillo M. M. 2016. Synapse. http://dx.doi.org/10.7303/syn2910256 - DOI
    1. Zou F. 2016. Synapse. http://dx.doi.org/10.7303/syn3157225 - DOI
    1. Zou F. 2016. Synapse. http://dx.doi.org/10.7303/syn3157249 - DOI
    1. Allen M. 2016. Synapse. http://dx.doi.org/10.7303/syn3157268 - DOI

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