RGD Reference Report - Common genetic variants and subclinical atherosclerosis: The Multi-Ethnic Study of Atherosclerosis (MESA). - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources

Common genetic variants and subclinical atherosclerosis: The Multi-Ethnic Study of Atherosclerosis (MESA).

Authors: Vargas, JD  Manichaikul, A  Wang, XQ  Rich, SS  Rotter, JI  Post, WS  Polak, JF  Budoff, MJ  Bluemke, DA 
Citation: Vargas JD, etal., Atherosclerosis. 2016 Feb;245:230-6. doi: 10.1016/j.atherosclerosis.2015.11.034. Epub 2015 Dec 8.
RGD ID: 11054804
Pubmed: PMID:26789557   (View Abstract at PubMed)
PMCID: PMC4738145   (View Article at PubMed Central)
DOI: DOI:10.1016/j.atherosclerosis.2015.11.034   (Journal Full-text)

BACKGROUND AND AIMS: Subclinical atherosclerosis (sCVD), measured by coronary artery calcium (CAC) and carotid intima media thickness (CIMT) is associated with cardiovascular disease (CVD). Genome-Wide Association Studies (GWAS) of sCVD and CVD have focused primarily on Caucasian populations. We hypothesized that these associations may differ in populations from distinct genetic backgrounds. METHODS: The associations between sCVD and 66 single nucleotide polymorphisms (SNPs) from published GWAS of sCVD and CVD were tested in 8224 Multi-Ethnic Study of Atherosclerosis (MESA) and MESA Family participants [2329 Caucasians (EUA), 691 Chinese (CHN), 2482 African Americans (AFA), and 2012 Hispanic (HIS)] using an additive model adjusting for CVD risk factors, with SNP significance defined by a Bonferroni-corrected p < 7.6 x 10(-4) (0.05/66). RESULTS: In EUA there were significant associations for CAC with SNPs in 9p21 (rs1333049, P = 2 x 10(-9); rs4977574, P = 4 x 10(-9)), COL4A1 (rs9515203, P = 9 x 10(-6)), and PHACTR1 (rs9349379, P = 4 x 10(-4)). In HIS, CAC was associated with SNPs in 9p21 (rs1333049, P = 8 x 10(-5); rs4977574, P = 5 x 10(-5)), APOA5 (rs964184, P = 2 x 10(-4)), and ADAMTS7 (rs7173743, P = 4 x 10(-4)). There were no associations between CAC and 9p21 SNPs for AFA and CHN. Fine mapping of the 9p21 region revealed SNPs with robust associations with CAC in EUA and HIS but no significant associations in AFA and CHN. CONCLUSION: Our results suggest some shared genetic architecture for sCVD across ethnic groups, while also underscoring the possibility of novel variants and/or pathways in risk of CVD in ethnically diverse populations.

RGD Manual Disease Annotations    Click to see Annotation Detail View
TermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
Coronary Artery Calcification  IAGP 11054804DNA:SNP:intron:g.13011943A>G (rs9349379) (human)RGD 
Coronary Artery Calcification  ISOPHACTR1 (Homo sapiens)11054804; 11054804DNA:SNP:intron:g.13011943A>G (rs9349379) (human)RGD 

Phenotype Annotations    Click to see Annotation Detail View

Manual Human Phenotype Annotations - RGD

TermQualifierEvidenceWithReferenceNotesSourceOriginal Reference(s)
Coronary artery calcification  IAGP 11054804DNA:SNP:intron:g.13011943A>G (rs9349379)RGD 
Objects Annotated

Genes (Rattus norvegicus)
Phactr1  (phosphatase and actin regulator 1)

Genes (Mus musculus)
Phactr1  (phosphatase and actin regulator 1)

Genes (Homo sapiens)
PHACTR1  (phosphatase and actin regulator 1)


Additional Information