PigVar
Overview
Pig SNPs
SNP Table
SNP Hit on Gene
SNP Coding
SNP lincRNA
Search SNPs by Region
Browse on Chromosome
SV
Positive Selection
Help
Manual
Pipeline
Data Statistics
Contact Us
Download
SNP Detail For rs55958997
1.Mapping Information
| Human SNP ID | rs55958997 |
|---|---|
| Human chromosome | chr15 |
| Human SNP position | 78623530 |
| Pig chromosome | chr7 |
| Pig SNP position | 52807889 |
2.Annotation Information
| PubMed ID | 25072098 |
|---|---|
| Journal | Ann Am Thorac Soc |
| Link | www.ncbi.nlm.nih.gov/pubmed/25072098 |
| Study | Beyond cigarettes-per-day: A genome-wide association study of the biomarker carbon monoxide. |
| Disease/Trait | Exhaled carbon monoxide levels |
| Initial sample | 1,521 European ancestry smoker individuals, 247 African American smoker individuals |
| Replication sample | NA |
| Region | 15q25.1 |
| Chromosome id | chr15 |
| Chromosome position | 78623530 |
| Reported gene | CHRNA5, CHRNB4, CHRNA3 |
| Mapped gene | CHRNB4 |
| Upstream gene id | |
| Downstream gene id | |
| SNP gene ids | 1143 |
| Upstream gene distance | |
| Downstream gene distance | |
| SNP risk allele | rs55958997-? |
| SNPs | rs55958997 |
| Merged | 0 |
| SNP id current | 55958997 |
| Context | upstream_gene_variant |
| Intergenic | 0 |
| Allele frequency | NR |
| P value | 0.000000002 |
| Pvalue mlog | 8.69897000433601 |
| P value text | (EA) |
| Or beta | 2.75 |
| %95 Ci | [1.86-3.64] unit increase |
| Platform | Illumina [NR] |
| CNV | N |
| Mapped trait | smoking behavior, carbon monoxide exhalation measurement |
| Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004318, http://www.ebi.ac.uk/efo/EFO_0006520 |
| Study accession | GCST002584 |
| PubMed ID | 26634245 |
| Journal | BMC Genet |
| Link | www.ncbi.nlm.nih.gov/pubmed/26634245 |
| Study | A genome-wide association study identifies risk loci for spirometric measures among smokers of European and African ancestry. |
| Disease/Trait | Post bronchodilator FEV1 |
| Initial sample | 10,094 European ancestry current and former smoker individuals, 3,260 African American current and former smoker individuals, 178 current and former smoker individuals |
| Replication sample | NA |
| Region | 15q25.1 |
| Chromosome id | chr15 |
| Chromosome position | 78623530 |
| Reported gene | Intergenic |
| Mapped gene | CHRNB4 |
| Upstream gene id | |
| Downstream gene id | |
| SNP gene ids | 1143 |
| Upstream gene distance | |
| Downstream gene distance | |
| SNP risk allele | rs55958997-A |
| SNPs | rs55958997 |
| Merged | 0 |
| SNP id current | 55958997 |
| Context | upstream_gene_variant |
| Intergenic | 0 |
| Allele frequency | 0.368 |
| P value | 0.0000000000006 |
| Pvalue mlog | 12.2218487496163 |
| P value text | |
| Or beta | 0.066 |
| %95 Ci | NR unit decrease |
| Platform | Illumina [NR] (imputed) |
| CNV | N |
| Mapped trait | forced expiratory volume, response to bronchodilator |
| Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004314, http://purl.obolibrary.org/obo/GO_0097366 |
| Study accession | GCST003262 |
| PubMed ID | 26634245 |
| Journal | BMC Genet |
| Link | www.ncbi.nlm.nih.gov/pubmed/26634245 |
| Study | A genome-wide association study identifies risk loci for spirometric measures among smokers of European and African ancestry. |
| Disease/Trait | Post bronchodilator FEV1/FVC ratio in COPD |
| Initial sample | 5,439 European ancestry current and former smoker cases, 821 African American current and former smoker cases |
| Replication sample | NA |
| Region | 15q25.1 |
| Chromosome id | chr15 |
| Chromosome position | 78623530 |
| Reported gene | Intergenic |
| Mapped gene | CHRNB4 |
| Upstream gene id | |
| Downstream gene id | |
| SNP gene ids | 1143 |
| Upstream gene distance | |
| Downstream gene distance | |
| SNP risk allele | rs55958997-A |
| SNPs | rs55958997 |
| Merged | 0 |
| SNP id current | 55958997 |
| Context | upstream_gene_variant |
| Intergenic | 0 |
| Allele frequency | 0.425 |
| P value | 0.0000007 |
| Pvalue mlog | 6.15490195998574 |
| P value text | |
| Or beta | 0.012 |
| %95 Ci | NR unit decrease |
| Platform | Illumina [NR] (imputed) |
| CNV | N |
| Mapped trait | response to bronchodilator, chronic obstructive pulmonary disease, FEV/FEC ratio |
| Mapped trait URI | http://purl.obolibrary.org/obo/GO_0097366, http://www.ebi.ac.uk/efo/EFO_0000341, http://www.ebi.ac.uk/efo/EFO_0004713 |
| Study accession | GCST003265 |
| PubMed ID | 26634245 |
| Journal | BMC Genet |
| Link | www.ncbi.nlm.nih.gov/pubmed/26634245 |
| Study | A genome-wide association study identifies risk loci for spirometric measures among smokers of European and African ancestry. |
| Disease/Trait | Post bronchodilator FEV1/FVC ratio |
| Initial sample | 10,094 European ancestry current and former smoker individuals, 3,260 African American current and former smoker individuals, 178 current and former smoker individuals |
| Replication sample | NA |
| Region | 15q25.1 |
| Chromosome id | chr15 |
| Chromosome position | 78623530 |
| Reported gene | Intergenic |
| Mapped gene | CHRNB4 |
| Upstream gene id | |
| Downstream gene id | |
| SNP gene ids | 1143 |
| Upstream gene distance | |
| Downstream gene distance | |
| SNP risk allele | rs55958997-A |
| SNPs | rs55958997 |
| Merged | 0 |
| SNP id current | 55958997 |
| Context | upstream_gene_variant |
| Intergenic | 0 |
| Allele frequency | 0.365 |
| P value | 0.0000000000001 |
| Pvalue mlog | 13 |
| P value text | |
| Or beta | 0.014 |
| %95 Ci | unit decrease |
| Platform | Illumina [NR] (imputed) |
| CNV | N |
| Mapped trait | response to bronchodilator, FEV/FEC ratio |
| Mapped trait URI | http://purl.obolibrary.org/obo/GO_0097366, http://www.ebi.ac.uk/efo/EFO_0004713 |
| Study accession | GCST003264 |
|
Kunming Institute of Zoology, CAS
and Xi'an University of Technology ©2014-2017 All Rights Reserved.
|
|