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| PMID |
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| TITLE |
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| Exhaustive search of the SNP-sNP interactome identifies epistatic effects on brain volume in two cohorts. |
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| ABSTRACT |
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| The SNP-SNP interactome has rarely been explored in the context of neuroimaging genetics mainly due to the complexity of conducting approximately 10(11) pairwise statistical tests. However, recent advances in machine learning, specifically the iterative sure independence screening (SIS) method, have enabled the analysis of datasets where the number of predictors is much larger than the number of observations. Using an implementation of the SIS algorithm (called EPISIS), we used exhaustive search of the genome-wide, SNP-SNP interactome to identify and prioritize SNPs for interaction analysis. We identified a significant SNP pair, rs1345203 and rs1213205, associated with temporal lobe volume. We further examined the full-brain, voxelwise effects of the interaction in the ADNI dataset and separately in an independent dataset of healthy twins (QTIM). We found that each additional loading in the epistatic effect was associated with approximately 5% greater brain regional brain volume (a protective effect) in both the ADNI and QTIM samples. |
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| DATE PUBLISHED |
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| HISTORY |
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| PUBSTATUS |
PUBSTATUSDATE |
| entrez |
2014/02/08 06:00 |
| pubmed |
2014/02/08 06:00 |
| medline |
2014/02/28 06:00 |
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| AUTHORS |
|
| NAME |
COLLECTIVENAME |
LASTNAME |
FORENAME |
INITIALS |
AFFILIATION |
AFFILIATIONINFO |
| Hibar DP |
|
Hibar |
Derrek P |
DP |
|
Imaging Genetics Center, Laboratory of Neuro Imaging, UCLA School of Medicine, Los Angeles, USA. |
| Stein JL |
|
Stein |
Jason L |
JL |
|
Imaging Genetics Center, Laboratory of Neuro Imaging, UCLA School of Medicine, Los Angeles, USA. |
| Jahanshad N |
|
Jahanshad |
Neda |
N |
|
Imaging Genetics Center, Laboratory of Neuro Imaging, UCLA School of Medicine, Los Angeles, USA. |
| Kohannim O |
|
Kohannim |
Omid |
O |
|
Imaging Genetics Center, Laboratory of Neuro Imaging, UCLA School of Medicine, Los Angeles, USA. |
| Toga AW |
|
Toga |
Arthur W |
AW |
|
Imaging Genetics Center, Laboratory of Neuro Imaging, UCLA School of Medicine, Los Angeles, USA. |
| McMahon KL |
|
McMahon |
Katie L |
KL |
|
Center for Magnetic Resonance, School of Psychology, University of Queensland, Brisbane, Australia. |
| de Zubicaray GI |
|
de Zubicaray |
Greig I |
GI |
|
Functional Magnetic Resonance Imaging Laboratory, School of Psychology, University of Queensland, Brisbane, Australia. |
| Montgomery GW |
|
Montgomery |
Grant W |
GW |
|
Genetic Epidemiology Laboratory, Queensland Institute of Medical Research, Brisbane, Australia. |
| Martin NG |
|
Martin |
Nicholas G |
NG |
|
Genetic Epidemiology Laboratory, Queensland Institute of Medical Research, Brisbane, Australia. |
| Wright MJ |
|
Wright |
Margaret J |
MJ |
|
Genetic Epidemiology Laboratory, Queensland Institute of Medical Research, Brisbane, Australia. |
| Weiner MW |
|
Weiner |
Michael W |
MW |
|
Department of Radiology, UC San Francisco, San Francisco, USA. |
| Thompson PM |
|
Thompson |
Paul M |
PM |
|
Imaging Genetics Center, Laboratory of Neuro Imaging, UCLA School of Medicine, Los Angeles, USA. |
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| INVESTIGATORS |
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| JOURNAL |
|
| VOLUME: 16 |
| ISSUE: Pt 3 |
| TITLE: Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted Intervention |
| ISOABBREVIATION: Med Image Comput Comput Assist Interv |
| YEAR: 2013 |
| MONTH: |
| DAY: |
| MEDLINEDATE: |
| SEASON: |
| CITEDMEDIUM: Print |
| ISSN: |
| ISSNTYPE: |
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| MEDLINE JOURNAL |
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| MEDLINETA: Med Image Comput Comput Assist Interv |
| COUNTRY: Germany |
| ISSNLINKING: 1433-7851 |
| NLMUNIQUEID: 101249582 |
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| PUBLICATION TYPE |
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| PUBLICATIONTYPE TEXT |
| Journal Article |
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| COMMENTS AND CORRECTIONS |
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| REFTYPE |
REFSOURCE |
REFPMID |
NOTE |
| Cites |
Proc Natl Acad Sci U S A. 2007 Jul 24;104(30):12536-41 |
17636131 |
|
| Cites |
Genetics. 2007 May;176(1):563-70 |
17194777 |
|
| Cites |
Inf Process Med Imaging. 2005;19:493-503 |
17354720 |
|
| Cites |
Nat Genet. 2005 Apr;37(4):413-7 |
15793588 |
|
| Cites |
Science. 1994 Sep 30;265(5181):2037-48 |
8091226 |
|
| Cites |
Genetics. 2001 May;158(1):357-67 |
11333244 |
|
| Cites |
BMC Bioinformatics. 2012;13:72 |
22554139 |
|
| Cites |
Neuroimage. 2013 Feb 15;66:648-61 |
23153970 |
|
| Cites |
Twin Res Hum Genet. 2012 Jun;15(3):414-8 |
22856375 |
|
| Cites |
J Neurosci. 2012 Jun 20;32(25):8732-45 |
22723713 |
|
| Cites |
Proc Natl Acad Sci U S A. 2012 Apr 3;109(14):E851-9 |
22232660 |
|
| Cites |
Genet Epidemiol. 2010 Dec;34(8):816-34 |
21058334 |
|
| Cites |
Neuroimage. 2010 Jun;51(2):542-54 |
20197096 |
|
| Cites |
Neuroimage. 2007 Oct 15;38(1):43-56 |
17825583 |
|
| Cites |
Mol Psychiatry. 2008 Jul;13(7):709-16 |
18347599 |
|
| Cites |
Biol Psychiatry. 2009 Jun 15;65(12):1048-54 |
19159868 |
|
| Cites |
Am J Hum Genet. 2009 Sep;85(3):309-20 |
19733727 |
|
| Cites |
Nat Rev Genet. 2009 Jun;10(6):392-404 |
19434077 |
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|
| GRANTS |
|
| GRANTID |
AGENCY |
COUNTRY |
| R01 MH097268 |
NIMH NIH HHS |
United States |
| U01 AG024904 |
NIA NIH HHS |
United States |
|
| GENERAL NOTE |
|
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| KEYWORDS |
|
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| MESH HEADINGS |
|
| DESCRIPTORNAME |
QUALIFIERNAME |
| Algorithms |
|
| Alzheimer Disease |
pathology |
| Brain |
pathology |
| Chromosome Mapping |
methods |
| Cohort Studies |
methods |
| Connectome |
methods |
| Epistasis, Genetic |
genetics |
| Genetic Predisposition to Disease |
genetics |
| Humans |
genetics |
| Magnetic Resonance Imaging |
methods |
| Organ Size |
methods |
| Polymorphism, Single Nucleotide |
genetics |
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| SUPPLEMENTARY MESH |
|
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| GENE SYMBOLS |
|
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| CHEMICALS |
|
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| OTHER ID's |
|
| OTHERID |
SOURCE |
| NIHMS567610 |
NLM |
| PMC4109883 |
NLM |
|
|
