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SNP Detail For rs3101336
1.Mapping Information
| Human SNP ID | rs3101336 |
|---|---|
| Human chromosome | chr1 |
| Human SNP position | 72285502 |
| Pig chromosome | chr6 |
| Pig SNP position | 130276837 |
2.Annotation Information
| PubMed ID | 23563609 |
|---|---|
| Journal | Nat Genet |
| Link | www.ncbi.nlm.nih.gov/pubmed/23563609 |
| Study | Genome-wide SNP and CNV analysis identifies common and low-frequency variants associated with severe early-onset obesity. |
| Disease/Trait | Obesity (early onset extreme) |
| Initial sample | 1,509 European ancestry cases, 5,380 European ancestry controls |
| Replication sample | 971 European ancestry cases, 1,990 European ancestry controls |
| Region | 1p31.1 |
| Chromosome id | chr1 |
| Chromosome position | 72285502 |
| Reported gene | NEGR1 |
| Mapped gene | LOC105378797 |
| Upstream gene id | |
| Downstream gene id | |
| SNP gene ids | 105378797 |
| Upstream gene distance | |
| Downstream gene distance | |
| SNP risk allele | rs3101336-C |
| SNPs | rs3101336 |
| Merged | 0 |
| SNP id current | 3101336 |
| Context | upstream_gene_variant |
| Intergenic | 0 |
| Allele frequency | 0.6 |
| P value | 0.00000002 |
| Pvalue mlog | 7.69897000433601 |
| P value text | |
| Or beta | 1.21 |
| %95 Ci | [1.13-1.29] |
| Platform | Affymetrix [~ 2000000] (imputed) |
| CNV | N |
| Mapped trait | obesity |
| Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0001073 |
| Study accession | GCST001957 |
| PubMed ID | 23563607 |
| Journal | Nat Genet |
| Link | www.ncbi.nlm.nih.gov/pubmed/23563607 |
| Study | Genome-wide meta-analysis identifies 11 new loci for anthropometric traits and provides insights into genetic architecture. |
| Disease/Trait | Obesity |
| Initial sample | 93,015 European ancestry overweight individuals, 32,858 European ancestry class I obese individuals, 9,889 European ancestry class II obese individuals, 2,896 European ancestry class III obese individuals, up to 65,840 European ancestry controls |
| Replication sample | 65,332 European ancestry overweight individuals, 22,373 European ancestry class I obese individuals, 5,476 European ancestry class II obese individuals, 1,162 European ancestry class III obese individuals, up to 39,294 European ancestry controls |
| Region | 1p31.1 |
| Chromosome id | chr1 |
| Chromosome position | 72285502 |
| Reported gene | NEGR1 |
| Mapped gene | LOC105378797 |
| Upstream gene id | |
| Downstream gene id | |
| SNP gene ids | 105378797 |
| Upstream gene distance | |
| Downstream gene distance | |
| SNP risk allele | rs3101336-C |
| SNPs | rs3101336 |
| Merged | 0 |
| SNP id current | 3101336 |
| Context | upstream_gene_variant |
| Intergenic | 0 |
| Allele frequency | 0.61 |
| P value | 0.0000000000001 |
| Pvalue mlog | 13 |
| P value text | (Obesity class II) |
| Or beta | 1.12 |
| %95 Ci | [NR] |
| Platform | Affymetrix, Illumina [~ 2800000] (imputed) |
| CNV | N |
| Mapped trait | obesity |
| Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0001073 |
| Study accession | GCST001953 |
| PubMed ID | 25231870 |
| Journal | Nature |
| Link | www.ncbi.nlm.nih.gov/pubmed/25231870 |
| Study | Parent-of-origin-specific allelic associations among 106 genomic loci for age at menarche. |
| Disease/Trait | Menarche (age at onset) |
| Initial sample | Up to 182,413 European ancestry females |
| Replication sample | NA |
| Region | 1p31.1 |
| Chromosome id | chr1 |
| Chromosome position | 72285502 |
| Reported gene | NEGR1 |
| Mapped gene | LOC105378797 |
| Upstream gene id | |
| Downstream gene id | |
| SNP gene ids | 105378797 |
| Upstream gene distance | |
| Downstream gene distance | |
| SNP risk allele | rs3101336-T |
| SNPs | rs3101336 |
| Merged | 0 |
| SNP id current | 3101336 |
| Context | upstream_gene_variant |
| Intergenic | 0 |
| Allele frequency | 0.4 |
| P value | 0.0000000000005 |
| Pvalue mlog | 12.3010299956639 |
| P value text | |
| Or beta | 0.04 |
| %95 Ci | [0.03-0.05] unit increase |
| Platform | Affymetrix, Illumina [2441815] (imputed) |
| CNV | N |
| Mapped trait | age at menarche |
| Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004703 |
| Study accession | GCST002541 |
| PubMed ID | 25673413 |
| Journal | Nature |
| Link | www.ncbi.nlm.nih.gov/pubmed/25673413 |
| Study | Genetic studies of body mass index yield new insights for obesity biology. |
| Disease/Trait | Body mass index |
| Initial sample | up to 104,666 European ancestry male individuals, up to 132,115 European ancestry female individuals, 370 African American male individuals, 517 African American female individuals, 512 Hispanic male individuals, 764 Hispanic female individuals |
| Replication sample | up to 48,274 European ancestry male individuals, up to 39,864 European ancestry female individuals, 2,441 African American or Afro-Caribbean male individuals, 6,314 African American or Afro-Caribbean female individuals, 919 Filipino male individuals, 828 |
| Region | 1p31.1 |
| Chromosome id | chr1 |
| Chromosome position | 72285502 |
| Reported gene | NEGR1 |
| Mapped gene | LOC105378797 |
| Upstream gene id | |
| Downstream gene id | |
| SNP gene ids | 105378797 |
| Upstream gene distance | |
| Downstream gene distance | |
| SNP risk allele | rs3101336-C |
| SNPs | rs3101336 |
| Merged | 0 |
| SNP id current | 3101336 |
| Context | upstream_gene_variant |
| Intergenic | 0 |
| Allele frequency | 0.614 |
| P value | 0.0000000000000002 |
| Pvalue mlog | 15.698970004336 |
| P value text | (EA, men) |
| Or beta | 0.035 |
| %95 Ci | [0.026-0.043] kg/m2 increase |
| Platform | Affymetrix, Illumina [2550021] |
| CNV | N |
| Mapped trait | body mass index |
| Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004340 |
| Study accession | GCST002783 |
| PubMed ID | 25673413 |
| Journal | Nature |
| Link | www.ncbi.nlm.nih.gov/pubmed/25673413 |
| Study | Genetic studies of body mass index yield new insights for obesity biology. |
| Disease/Trait | Body mass index |
| Initial sample | up to 104,666 European ancestry male individuals, up to 132,115 European ancestry female individuals, 370 African American male individuals, 517 African American female individuals, 512 Hispanic male individuals, 764 Hispanic female individuals |
| Replication sample | up to 48,274 European ancestry male individuals, up to 39,864 European ancestry female individuals, 2,441 African American or Afro-Caribbean male individuals, 6,314 African American or Afro-Caribbean female individuals, 919 Filipino male individuals, 828 |
| Region | 1p31.1 |
| Chromosome id | chr1 |
| Chromosome position | 72285502 |
| Reported gene | NEGR1 |
| Mapped gene | LOC105378797 |
| Upstream gene id | |
| Downstream gene id | |
| SNP gene ids | 105378797 |
| Upstream gene distance | |
| Downstream gene distance | |
| SNP risk allele | rs3101336-C |
| SNPs | rs3101336 |
| Merged | 0 |
| SNP id current | 3101336 |
| Context | upstream_gene_variant |
| Intergenic | 0 |
| Allele frequency | 0.611 |
| P value | 0.00000000000000009 |
| Pvalue mlog | 16.0457574905606 |
| P value text | (EA, women) |
| Or beta | 0.033 |
| %95 Ci | [0.026-0.041] kg/m2 increase |
| Platform | Affymetrix, Illumina [2550021] |
| CNV | N |
| Mapped trait | body mass index |
| Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004340 |
| Study accession | GCST002783 |
| PubMed ID | 25673413 |
| Journal | Nature |
| Link | www.ncbi.nlm.nih.gov/pubmed/25673413 |
| Study | Genetic studies of body mass index yield new insights for obesity biology. |
| Disease/Trait | Body mass index |
| Initial sample | up to 104,666 European ancestry male individuals, up to 132,115 European ancestry female individuals, 370 African American male individuals, 517 African American female individuals, 512 Hispanic male individuals, 764 Hispanic female individuals |
| Replication sample | up to 48,274 European ancestry male individuals, up to 39,864 European ancestry female individuals, 2,441 African American or Afro-Caribbean male individuals, 6,314 African American or Afro-Caribbean female individuals, 919 Filipino male individuals, 828 |
| Region | 1p31.1 |
| Chromosome id | chr1 |
| Chromosome position | 72285502 |
| Reported gene | NEGR1 |
| Mapped gene | LOC105378797 |
| Upstream gene id | |
| Downstream gene id | |
| SNP gene ids | 105378797 |
| Upstream gene distance | |
| Downstream gene distance | |
| SNP risk allele | rs3101336-C |
| SNPs | rs3101336 |
| Merged | 0 |
| SNP id current | 3101336 |
| Context | upstream_gene_variant |
| Intergenic | 0 |
| Allele frequency | 0.613 |
| P value | 3E-26 |
| Pvalue mlog | 25.5228787452803 |
| P value text | (EA) |
| Or beta | 0.033 |
| %95 Ci | [0.027-0.039] kg/m2 increase |
| Platform | Affymetrix, Illumina [2550021] |
| CNV | N |
| Mapped trait | body mass index |
| Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004340 |
| Study accession | GCST002783 |
| PubMed ID | 25673413 |
| Journal | Nature |
| Link | www.ncbi.nlm.nih.gov/pubmed/25673413 |
| Study | Genetic studies of body mass index yield new insights for obesity biology. |
| Disease/Trait | Body mass index |
| Initial sample | up to 104,666 European ancestry male individuals, up to 132,115 European ancestry female individuals, 370 African American male individuals, 517 African American female individuals, 512 Hispanic male individuals, 764 Hispanic female individuals |
| Replication sample | up to 48,274 European ancestry male individuals, up to 39,864 European ancestry female individuals, 2,441 African American or Afro-Caribbean male individuals, 6,314 African American or Afro-Caribbean female individuals, 919 Filipino male individuals, 828 |
| Region | 1p31.1 |
| Chromosome id | chr1 |
| Chromosome position | 72285502 |
| Reported gene | NEGR1 |
| Mapped gene | LOC105378797 |
| Upstream gene id | |
| Downstream gene id | |
| SNP gene ids | 105378797 |
| Upstream gene distance | |
| Downstream gene distance | |
| SNP risk allele | rs3101336-C |
| SNPs | rs3101336 |
| Merged | 0 |
| SNP id current | 3101336 |
| Context | upstream_gene_variant |
| Intergenic | 0 |
| Allele frequency | 0.611 |
| P value | 6E-26 |
| Pvalue mlog | 25.2218487496163 |
| P value text | |
| Or beta | 0.032 |
| %95 Ci | [0.026-0.038] kg/m2 increase |
| Platform | Affymetrix, Illumina [2550021] |
| CNV | N |
| Mapped trait | body mass index |
| Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004340 |
| Study accession | GCST002783 |
| PubMed ID | 26604143 |
| Journal | Hum Mol Genet |
| Link | www.ncbi.nlm.nih.gov/pubmed/26604143 |
| Study | Genome-wide association analysis identifies three new susceptibility loci for childhood body mass index. |
| Disease/Trait | Childhood body mass index |
| Initial sample | 34,744 European ancestry children |
| Replication sample | 11,313 European ancestry children |
| Region | 1p31.1 |
| Chromosome id | chr1 |
| Chromosome position | 72285502 |
| Reported gene | NR |
| Mapped gene | LOC105378797 |
| Upstream gene id | |
| Downstream gene id | |
| SNP gene ids | 105378797 |
| Upstream gene distance | |
| Downstream gene distance | |
| SNP risk allele | rs3101336-C |
| SNPs | rs3101336 |
| Merged | 0 |
| SNP id current | 3101336 |
| Context | upstream_gene_variant |
| Intergenic | 0 |
| Allele frequency | NR |
| P value | 0.00000004 |
| Pvalue mlog | 7.39794000867203 |
| P value text | |
| Or beta | |
| %95 Ci | |
| Platform | Affymetrix, Illumina [2499691] (imputed) |
| CNV | N |
| Mapped trait | body mass index |
| Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004340 |
| Study accession | GCST003177 |
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and Xi'an University of Technology ©2014-2017 All Rights Reserved.
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