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

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

doi:10.1038/sdata.2016.89

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

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

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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.

Original language	English (US)
Article number	160089
Journal	Scientific Data
Volume	3
DOIs	https://doi.org/10.1038/sdata.2016.89
State	Published - Oct 11 2016
Externally published	Yes

ASJC Scopus subject areas

Statistics and Probability
Information Systems
Education
Computer Science Applications
Statistics, Probability and Uncertainty
Library and Information Sciences

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10.1038/sdata.2016.89

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Allen, M., Carrasquillo, M. M., Funk, C., Heavner, B. D., Zou, F., Younkin, C. S., Burgess, J. D., Chai, H. S., Crook, J., Eddy, J. A., Li, H., Logsdon, B., Peters, M. A., Dang, K. K., Wang, X., Serie, D., Wang, C., Nguyen, T., Lincoln, S., ... Ertekin-Taner, N. (2016). Human whole genome genotype and transcriptome data for Alzheimer's and other neurodegenerative diseases. Scientific Data, 3, Article 160089. https://doi.org/10.1038/sdata.2016.89

Allen, M, Carrasquillo, MM, Funk, C, Heavner, BD, Zou, F, Younkin, CS, Burgess, JD, Chai, HS, Crook, J, Eddy, JA, Li, H, Logsdon, B, Peters, MA, Dang, KK, Wang, X, Serie, D, Wang, C, Nguyen, T, Lincoln, S, Malphrus, K, Bisceglio, G, Li, M, Golde, TE, Mangravite, LM, Asmann, Y, Price, ND, Petersen, RC, Graff-Radford, NR, Dickson, DW, Younkin, SG & Ertekin-Taner, N 2016, 'Human whole genome genotype and transcriptome data for Alzheimer's and other neurodegenerative diseases', Scientific Data, vol. 3, 160089. https://doi.org/10.1038/sdata.2016.89

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title = "Human whole genome genotype and transcriptome data for Alzheimer's and other neurodegenerative diseases",

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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AU - Funk, Cory

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AU - Zou, Fanggeng

AU - Younkin, Curtis S.

AU - Burgess, Jeremy D.

AU - Chai, High Seng

AU - Crook, Julia

AU - Eddy, James A.

AU - Li, Hongdong

AU - Logsdon, Ben

AU - Peters, Mette A.

AU - Dang, Kristen K.

AU - Wang, Xue

AU - Serie, Daniel

AU - Wang, Chen

AU - Nguyen, Thuy

AU - Lincoln, Sarah

AU - Malphrus, Kimberly

AU - Bisceglio, Gina

AU - Li, Ma

AU - Golde, Todd E.

AU - Mangravite, Lara M.

AU - Asmann, Yan

AU - Price, Nathan D.

AU - Petersen, Ronald C.

AU - Graff-Radford, Neill R.

AU - Dickson, Dennis W.

AU - Younkin, Steven G.

AU - Ertekin-Taner, Nilüfer

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

Abstract

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