Network-based analysis of genetic variants associated with hippocampal volume in Alzheimer's disease: a study of ADNI cohorts

BioData Mining
Ailin SongAlzheimer’s Disease Neuroimaging Initiative

Abstract

Alzheimer's disease (AD) is a neurodegenerative disease that causes dementia. While molecular basis of AD is not fully understood, genetic factors are expected to participate in the development and progression of the disease. Our goal was to uncover novel genetic underpinnings of Alzheimer's disease with a bioinformatics approach that accounts for tissue specificity. We performed genome-wide association studies (GWAS) for hippocampal volume in two Alzheimer's Disease Neuroimaging Initiative (ADNI) cohorts. We used these GWAS in a subsequent tissue-specific network-wide association study (NetWAS), which applied nominally significant associations in the initial GWAS to identify disease relevant patterns in a functional network for the hippocampus. We compared prioritized gene lists from NetWAS and GWAS with literature curated AD-associated genes from the Online Mendelian Inheritance in Man (OMIM) database. In the ADNI-1 GWAS, where we also observed an enrichment of low p-values, NetWAS prioritized disease-gene associations in accordance with OMIM annotations. This was not observed in the ADNI-2 dataset. We provide source code to replicate these analyses as well as complete results under permissive licenses. We performed the first...Continue Reading

References

Dec 21, 2004·Nucleic Acids Research·Ada HamoshVictor A McKusick
Feb 28, 2008·Journal of Magnetic Resonance Imaging : JMRI·Clifford R JackMichael W Weiner
Mar 20, 2009·Annals of Neurology·Leslie M ShawUNKNOWN Alzheimer's Disease Neuroimaging Initiative
Apr 14, 2009·American Journal of Human Genetics·Jennifer A WebsterAmanda J Myers
May 11, 2010·Alzheimer's & Dementia : the Journal of the Alzheimer's Association·William J JagustUNKNOWN Alzheimer's Disease Neuroimaging Initiative
May 11, 2010·Alzheimer's & Dementia : the Journal of the Alzheimer's Association·Andrew J SaykinUNKNOWN Alzheimer's Disease Neuroimaging Initiative
Jul 6, 2010·American Journal of Human Genetics·Jimmy Z LiuStuart Macgregor
Mar 5, 2011·Lancet·Clive BallardEmma Jones
Nov 15, 2011·Nucleic Acids Research·Lynn Marie SchrimlWarren Alden Kibbe
Apr 5, 2013·Frontiers in Aging Neuroscience·Shannon L RisacherUNKNOWN Alzheimer's Disease Neuroimaging Initiative (ADNI)†
Jul 31, 2013·PloS One·Sungeun KimUNKNOWN Alzheimer’s Disease Neuroimaging Initiative (ADNI)
Dec 3, 2014·Trends in Genetics : TIG·Adriana Estela Sedeño-Cortés, Paul Pavlidis
Apr 29, 2015·Nature Genetics·Casey S GreeneOlga G Troyanskaya

❮ Previous
Next ❯

Citations

Jun 25, 2016·Human Molecular Genetics·Casey S Greene, Benjamin F Voight
Jun 3, 2017·Bioinformatics·Xiaohui YaoUNKNOWN Alzheimer’s Disease Neuroimaging Initiative
Aug 31, 2017·Neurology. Genetics·Anne-Katrin GieseNatalia S Rost
May 13, 2018·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Juliet T JarrellXudong Huang
Nov 23, 2018·Neuroscience and Biobehavioral Reviews·Zuo-Teng WangJin-Tai Yu
Jul 1, 2020·Neuron·Jean-Pierre RoussariePaul Greengard
Apr 24, 2021·Frontiers in Genetics·Jeffrey L BrabecJ Matthew Mahoney

❮ Previous
Next ❯

Methods Mentioned

BETA
genotyping

Software Mentioned

Freesurfer
PLINK
DISCOVERY
NetWAS
BSD
VEGAS
NetWAS - based association study ( VEGAS )

Related Concepts

Related Feeds

Alzheimer's Disease: Neuroimaging

Neuroimaging can help identify pathological hallmarks of Alzheimer's disease (AD). Here is the latest research on neuroimaging modalities, including magnetic resonance imaging and positron emission tomography, in AD.

Related Papers

Journal of Computational Biology : a Journal of Computational Molecular Cell Biology
Sinan ErtenMehmet Koyuturk
Indian Journal of Dermatology, Venereology and Leprology
S Amladi
Nihon rinsho. Japanese journal of clinical medicine
Takeshi Iwatsubo
© 2022 Meta ULC. All rights reserved