Haplotype block structure of the genomic region of the mu opioid receptor gene.

paper Cited Public

Authors: Levran, Orna; Awolesi, Olaoluwakitan; Linzy, Shirley; Adelson, Miriam; Kreek, Mary Jeanne
Year: 2011
Journal: Journal of human genetics
PMID: 21160491
DOI: 10.1038/jhg.2010.150
PMCID: PMC3075619

#	Section	Preview
0	Introduction	The G protein-coupled mu opioid receptor (encoded by the OPRM1 gene) affects signal transduction…
1	Introduction	The non-synonymous variant rs1799971 (118A>G, Asn40Asp) was shown to remove a potential…
2	Introduction	Another potential source of functional diversity is splice variants. At least half of the genome is…
3	Introduction	The proximal promoter region does not necessarily contain all elements required for tissue-specific…
4	Introduction	In a recent association study of heroin addiction we have detected association of two variants in…
5	Introduction	Our hypothesis is that there may be additional non-coding variants, possibly distant from OPRM1,…
6	Introduction	Toward this goal, we performed an analysis of genetic variations and haplogroups in the OPRM1 100 kb…
7	Materials and Methods — Comparative genomic analysis	Comparative genomic analysis was obtained from the UCSC Genome Browser (http://genome.ucsc.edu/) and…
8	Materials and Methods — HapMap data	HapMap genotype and phased haplotype data were obtained from the genome browser of The International…
9	Materials and Methods — Subjects	An exploratory representative group of 103 subjects was selected, based on their 118A>G genotype,…
10	Materials and Methods — Ancestry informative markers (AIMs)	One hundred seventy-four AIMs with adequate quality were employed to calculate the proportion of…
11	Materials and Methods — Linkage disequilibrium (LD) structure, haplotypes and multi-locus genotype patterns (MLGPs)	The pattern of pair-wise LD between the three SNPs (#5, 6 and 8) in the original sample9 was…
12	Materials and Methods — SNP selection and genotyping	Three SNPs (rs1799971(#5), rs510769 (#6) and rs3778151 (#8)) were genotyped using the Illumina…
13	Materials and Methods — SNP selection and genotyping	DNA was extracted from blood and genotypes were determined by TaqMan® technology. The TaqMan®…
14	Materials and Methods — SNP selection and genotyping	For verification of the TaqMan® assay, PCR amplification was performed using Platinum PCR Supermix…
15	Results	The genomic organization of the OPRM1 gene region is shown in Figure 1a. OPRM1 is mapped to…
16	Results	In this study, we focused on the region spanning the ~100 kb 5′ flanking region, exon 1, and the…
17	Results	The HapMap CEU haplotype data revealed four major haplogroups (Figure 2b): 1) the “reference”…
18	Results	The two SNPs (rs510769 (#6), rs3778151 (#8)) identified in our recent study to be associated with…
19	Results	We searched for similar haplogroups in the other HapMap populations (the combined JPT/CHB and YRI).…

Name	Type
118G local	variant
118G/118G genotype group local	cohort
118G haplogroup local	variant
A118G SNP	variant
A allele	cohort
ABI Prism 3700 local	drug
ABI Prism® 7900 sequence detection system local	drug
addiction	phenotype
African	cohort
African American	cohort
African HapMap local	cohort
African samples	cohort
AmpErase uracil-N-glycosylate local	drug
Applied Biosystems (ABI) local	drug
Asian	cohort
beta-endorphin	drug
block 1 SNPs local	variant
block 1 variants local	variant
block 2 local	cohort
block 3 local	cohort
block 3 haplogroup local	variant
block 4 intron 1 variants local	variant
cases	cohort
Caucasians	cohort
Caucasian sample	cohort
CEPH diversity panel local	cohort
CEU	cohort
controls	cohort
cortisol	drug
drug dependence	phenotype
European ancestry	cohort
European population	cohort
exploratory representative sample local	cohort
GeneAmp® PCR 9700 local	drug
haplogroup local	variant
haplogroup 3 local	cohort
haplogroup block 1 local	variant
Haploview version 4.2.36 local	drug
HapMap3	cohort
HapMap African population local	cohort
HapMap Asian populations local	cohort
HapMap CEU	cohort
healthy controls	cohort
heavy drinking	phenotype
heroin addiction subjects local	cohort
HPA activation local	phenotype
humans	cohort
INT1 local	cohort
INT1 local	variant
INT1 haplogroup local	cohort
INT1 haplogroup local	variant
International Hapmap Project	cohort
International HapMap Project Phase 2 local	cohort
intron 1 sequence local	variant
intron 1 variant local	variant
IPCEF1 local	gene
IVS1 local	variant
IVS1/118G genotype group local	cohort
IVS1/118G subgroup local	cohort
IVS1 SNP #6 local	variant
IVS1 SNP #7 local	variant
IVS1 SNP #8 local	variant
IVS1 SNPs local	variant
JPN/CHB local	cohort
JPT/CHB local	cohort
linked variants local	variant
Methadone	drug
naloxone	drug
naltrexone	drug
non-coding variants (distant from OPRM1) local	variant
opioid	drug
opioid adverse effects local	phenotype
Opioid adverse effects local	phenotype
opioid dependence	phenotype
opioid response	phenotype
opioid reward	phenotype
opioid tolerance	phenotype
OPRM1	cohort
OPRM1 A118G	cohort
OPRM1 alternative exon local	variant
OPRM1 intron 1 SNP local	variant
OPRM1 intron 1 variant #6 local	variant
OPRM1 intron 1 variant #8 local	variant
OPRM1 splice variant	variant
original sample9 local	cohort
Others local	cohort
PADI3 local	gene
pain	phenotype
pain perception	phenotype
pain sensitivity	phenotype
Platinum PCR Supermix local	drug
positive response to heroin after first use local	phenotype
Primer3.37 local	drug
REF local	cohort
REF local	variant
REF/118G genotype group local	cohort
REF/REF genotype group local	cohort
REF/REF subgroup local	cohort
response to naltrexone treatment	phenotype
response to opiates local	phenotype
RGS17 local	gene
rodents	cohort
rs10457090 local	variant
rs1074287	variant
rs11966947 local	variant
rs12174208 local	variant
rs12527423 local	variant
rs1551808 local	variant
rs17084868 local	variant
rs17084870 local	variant
rs1799971	variant
rs3778146 local	variant
rs3778151	variant
rs3778152 local	variant
rs510769	variant
rs563649	variant
rs6936615 local	variant
rs7748401 local	variant
rs7758009 local	variant
rs7760028 local	variant
rs9384167 local	variant
rs9478498 local	variant
rs9478499 local	variant
SDS 2.1 software local	drug
Sequencer 4.5 local	drug
SNP #1 local	variant
SNP -1320A>G local	variant
SNP -1699insT local	variant
SNP -1793T>A local	variant
SNP #2 local	variant
SNP -2044C>A local	variant
SNP #3 local	variant
SNP #5 local	variant
SNP -554G>A local	variant
SNP #6 local	variant
SNP #8 local	variant
SNPs in intron 1 local	variant
study cohort	cohort
Subgroup 1 local	cohort
Subgroup 2 local	cohort
Subgroup 4 local	cohort
substance use	phenotype
TaqMan assay	drug
TaqMan® Pre-Designed SNP Genotyping Assay local	drug
TaqMan® technology local	drug
TaqMan Universal PCR Master Mix	drug
treatment response	phenotype
vulnerability to develop opioid addiction local	phenotype
YRI	cohort

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In this knowledge base

Title	Year	PMID
Multi-trait genome-wide association study of opioid addiction: OPRM1 and beyond.	2022	36207451
A cis-eQTL in OPRM1 is Associated with Subjective Response to Alcohol and Alcohol Use.	2017	28273335
Cis-Expression Quantitative Trait Loci Mapping Reveals Replicable Associations with Heroin Addiction in OPRM1.	2015	25744370
The genetics of substance dependence.	2012	22703173
The genetics of the opioid system and specific drug addictions.	2012	22547174
The role of the Asn40Asp polymorphism of the mu opioid receptor gene (OPRM1) on alcoholism etiology and treatment: a critical review.	2012	21895723

External

Title	Authors	Journal	Year	Link
Multi-trait genome-wide association study of opioid addiction: OPRM1 and beyond.	Gaddis N et al.	—	2022	→
Population-specific genetic background for the OPRM1 variant rs1799971 (118A>G): implications for genomic medicine and functional analysis.	Levran O et al.	—	2021	→
A hominid-specific shift in cerebellar expression, upstream retrotransposons, and a potential cis-regulatory mechanism: bioinformatics analyses of the mu-opioid receptor gene.	Levran O et al.	—	2020	→
Association of OPRM1 Functional Coding Variant With Opioid Use Disorder: A Genome-Wide Association Study.	Zhou H et al.	—	2020	→
Current status of opioid addiction treatment and related preclinical research.	Kreek MJ et al.	—	2019	→
The frequency of <i>DRD2</i> rs1076560 and <i>OPRM1</i> rs1799971 in substance use disorder patients from the United Arab Emirates.	Alblooshi H et al.	—	2018	→
A cis-eQTL in OPRM1 is Associated with Subjective Response to Alcohol and Alcohol Use.	Otto JM et al.	—	2017	→
Contribution of Genetic Polymorphisms and Haplotypes in DRD2, BDNF, and Opioid Receptors to Heroin Dependence and Endophenotypes Among the Han Chinese.	Gao X et al.	—	2017	→
Dimensionality and Genetic Correlates of Problem Behavior in Low-Income African American Adolescents.	Latendresse SJ et al.	—	2017	→
Opioids Resistance in Chronic Pain Management.	Morrone LA et al.	—	2017	→
The μ-opioid receptor nonsynonymous variant 118A>G is associated with prolonged abstinence from heroin without agonist treatment.	Levran O et al.	—	2017	→
Cis-Expression Quantitative Trait Loci Mapping Reveals Replicable Associations with Heroin Addiction in OPRM1.	Hancock DB et al.	—	2015	→
Human population genetic structure detected by pain-related mu opioid receptor gene polymorphisms.	López Soto EJ et al.	—	2015	→
TACR1 gene polymorphism and sex differences in postoperative nausea and vomiting.	Hayase T et al.	—	2015	→
Association of μ-opioid receptor gene (OPRM1) haplotypes with postoperative nausea and vomiting.	Sugino S et al.	—	2014	→
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OPRM1 genetic polymorphisms are associated with the plasma nicotine metabolite cotinine concentration in methadone maintenance patients: a cross sectional study.	Chen YT et al.	—	2013	→
A118G Mu Opioid Receptor polymorphism increases inhibitory effects on CaV2.2 channels.	Lopez Soto EJ et al.	—	2012	→
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The role of the Asn40Asp polymorphism of the mu opioid receptor gene (OPRM1) on alcoholism etiology and treatment: a critical review.	Ray LA et al.	—	2012	→