Two-stage Bayesian GWAS of 9576 individuals identifies SNP regions that are targeted by miRNAs inversely expressed in Alzheimer's and cancer

Alzheimer's Disease Neuroimaging Initiative, Breast and Prostate Cancer Cohort Consortium, and Alzheimer's Disease Genetics Consortium

Research output: Contribution to journalArticle

Abstract

INTRODUCTION: We compared genetic variants between Alzheimer's disease (AD) and two age-related cancers-breast and prostate -to identify single-nucleotide polymorphisms (SNPs) that are associated with inverse comorbidity of AD and cancer. METHODS: Bayesian multinomial regression was used to compare sex-stratified cases (AD and cancer) against controls in a two-stage study. A ±500 KB region around each replicated hit was imputed and analyzed after merging individuals from the two stages. The microRNAs (miRNAs) that target the genes involving these SNPs were analyzed for miRNA family enrichment. RESULTS: We identified 137 variants with inverse odds ratios for AD and cancer located on chromosomes 19, 4, and 5. The mapped miRNAs within the network were enriched for miR-17 and miR-515 families. DISCUSSION: The identified SNPs were rs4298154 (intergenic), within TOMM40/APOE/APOC1, MARK4, CLPTM1, and near the VDAC1/FSTL4 locus. The miRNAs identified in our network have been previously reported to have inverse expression in AD and cancer.

Original languageEnglish
Pages (from-to)162-177
Number of pages16
JournalAlzheimer's & dementia : the journal of the Alzheimer's Association
Volume16
Issue number1
DOIs
StatePublished - 1 Jan 2020

Fingerprint

Genome-Wide Association Study
MicroRNAs
Single Nucleotide Polymorphism
Alzheimer Disease
Neoplasms
Chromosomes, Human, Pair 19
Chromosomes, Human, Pair 5
Chromosomes, Human, Pair 4
Apolipoproteins E
Comorbidity
Prostatic Neoplasms
Odds Ratio
Breast Neoplasms
Genes

Keywords

  • aging
  • Alzheimer's
  • cancer
  • CLPTM1
  • FSTL4
  • genetic risk
  • GWAS
  • inverse association
  • MARK4
  • two-stage Bayesian
  • VDAC1

Cite this

Alzheimer's Disease Neuroimaging Initiative, Breast and Prostate Cancer Cohort Consortium, and Alzheimer's Disease Genetics Consortium (2020). Two-stage Bayesian GWAS of 9576 individuals identifies SNP regions that are targeted by miRNAs inversely expressed in Alzheimer's and cancer. Alzheimer's & dementia : the journal of the Alzheimer's Association, 16(1), 162-177. https://doi.org/10.1002/alz.12003
Alzheimer's Disease Neuroimaging Initiative, Breast and Prostate Cancer Cohort Consortium, and Alzheimer's Disease Genetics Consortium. / Two-stage Bayesian GWAS of 9576 individuals identifies SNP regions that are targeted by miRNAs inversely expressed in Alzheimer's and cancer. In: Alzheimer's & dementia : the journal of the Alzheimer's Association. 2020 ; Vol. 16, No. 1. pp. 162-177.
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Alzheimer's Disease Neuroimaging Initiative, Breast and Prostate Cancer Cohort Consortium, and Alzheimer's Disease Genetics Consortium 2020, 'Two-stage Bayesian GWAS of 9576 individuals identifies SNP regions that are targeted by miRNAs inversely expressed in Alzheimer's and cancer', Alzheimer's & dementia : the journal of the Alzheimer's Association, vol. 16, no. 1, pp. 162-177. https://doi.org/10.1002/alz.12003

Two-stage Bayesian GWAS of 9576 individuals identifies SNP regions that are targeted by miRNAs inversely expressed in Alzheimer's and cancer. / Alzheimer's Disease Neuroimaging Initiative, Breast and Prostate Cancer Cohort Consortium, and Alzheimer's Disease Genetics Consortium.

In: Alzheimer's & dementia : the journal of the Alzheimer's Association, Vol. 16, No. 1, 01.01.2020, p. 162-177.

Research output: Contribution to journalArticle

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AU - Alzheimer's Disease Neuroimaging Initiative, Breast and Prostate Cancer Cohort Consortium, and Alzheimer's Disease Genetics Consortium

AU - Pathak, Gita A.

AU - Zhou, Zhengyang

AU - Silzer, Talisa K.

AU - Barber, Robert C.

AU - Phillips, Nicole R.

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N2 - INTRODUCTION: We compared genetic variants between Alzheimer's disease (AD) and two age-related cancers-breast and prostate -to identify single-nucleotide polymorphisms (SNPs) that are associated with inverse comorbidity of AD and cancer. METHODS: Bayesian multinomial regression was used to compare sex-stratified cases (AD and cancer) against controls in a two-stage study. A ±500 KB region around each replicated hit was imputed and analyzed after merging individuals from the two stages. The microRNAs (miRNAs) that target the genes involving these SNPs were analyzed for miRNA family enrichment. RESULTS: We identified 137 variants with inverse odds ratios for AD and cancer located on chromosomes 19, 4, and 5. The mapped miRNAs within the network were enriched for miR-17 and miR-515 families. DISCUSSION: The identified SNPs were rs4298154 (intergenic), within TOMM40/APOE/APOC1, MARK4, CLPTM1, and near the VDAC1/FSTL4 locus. The miRNAs identified in our network have been previously reported to have inverse expression in AD and cancer.

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Alzheimer's Disease Neuroimaging Initiative, Breast and Prostate Cancer Cohort Consortium, and Alzheimer's Disease Genetics Consortium. Two-stage Bayesian GWAS of 9576 individuals identifies SNP regions that are targeted by miRNAs inversely expressed in Alzheimer's and cancer. Alzheimer's & dementia : the journal of the Alzheimer's Association. 2020 Jan 1;16(1):162-177. https://doi.org/10.1002/alz.12003