Human SNP ID | rs6903608 |
---|---|
Human chromosome | chr6 |
Human SNP position | 32460508 |
Pig chromosome | chr7 |
Pig SNP position | 29063118 |
PubMed ID | 21037568 |
---|---|
Journal | Nat Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/21037568 |
Study | A genome-wide association study of Hodgkin__s lymphoma identifies new susceptibility loci at 2p16.1 (REL), 8q24.21 and 10p14 (GATA3). |
Disease/Trait | Hodgkin__s lymphoma |
Initial sample | 589 European ancestry cases, 5,199 European ancestry controls |
Replication sample | 2,057 European ancestry cases, 3,416 European ancestry controls |
Region | 6p21.32 |
Chromosome id | chr6 |
Chromosome position | 32460508 |
Reported gene | HLA-DRA |
Mapped gene | HLA-DRA - HLA-DRB5 |
Upstream gene id | 3122 |
Downstream gene id | 3127 |
SNP gene ids | |
Upstream gene distance | 15462 |
Downstream gene distance | 56866 |
SNP risk allele | rs6903608-G |
SNPs | rs6903608 |
Merged | 0 |
SNP id current | 6903608 |
Context | intron_variant |
Intergenic | 1 |
Allele frequency | 0.27 |
P value | 3E-50 |
Pvalue mlog | 49.5228787452803 |
P value text | |
Or beta | 1.7 |
%95 Ci | [1.58-1.82] |
Platform | Illumina [504374] |
CNV | N |
Mapped trait | Hodgkins lymphoma |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0000183 |
Study accession | GCST000851 |
PubMed ID | 24920014 |
Journal | Nat Commun |
Link | www.ncbi.nlm.nih.gov/pubmed/24920014 |
Study | A meta-analysis of Hodgkin lymphoma reveals 19p13.3 TCF3 as a novel susceptibility locus. |
Disease/Trait | Hodgkin__s lymphoma |
Initial sample | 1,816 European ancestry cases, 7,877 European ancestry controls |
Replication sample | 1,281 European ancestry cases, 3,218 European ancestry controls |
Region | 6p21.32 |
Chromosome id | chr6 |
Chromosome position | 32460508 |
Reported gene | HLA class II, HLA class I |
Mapped gene | HLA-DRA - HLA-DRB5 |
Upstream gene id | 3122 |
Downstream gene id | 3127 |
SNP gene ids | |
Upstream gene distance | 15462 |
Downstream gene distance | 56866 |
SNP risk allele | rs6903608-C |
SNPs | rs6903608 |
Merged | 0 |
SNP id current | 6903608 |
Context | intron_variant |
Intergenic | 1 |
Allele frequency | 0.3 |
P value | 7E-31 |
Pvalue mlog | 30.1549019599857 |
P value text | |
Or beta | 1.64 |
%95 Ci | [1.51鈥?.78] |
Platform | Affymetrix, Illumina [1004829] (imputed) |
CNV | N |
Mapped trait | Hodgkins lymphoma |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0000183 |
Study accession | GCST002480 |
PubMed ID | 24149102 |
Journal | Nat Commun |
Link | www.ncbi.nlm.nih.gov/pubmed/24149102 |
Study | Variation at 3p24.1 and 6q23.3 influences the risk of Hodgkin__s lymphoma. |
Disease/Trait | Hodgkin__s lymphoma |
Initial sample | 1,465 European ancestry cases, 6,417 European ancestry controls |
Replication sample | 1,071 European ancestry cases, 953 cases, 1,853 controls |
Region | 6p21.32 |
Chromosome id | chr6 |
Chromosome position | 32460508 |
Reported gene | NR |
Mapped gene | HLA-DRA - HLA-DRB5 |
Upstream gene id | 3122 |
Downstream gene id | 3127 |
SNP gene ids | |
Upstream gene distance | 15462 |
Downstream gene distance | 56866 |
SNP risk allele | rs6903608-G |
SNPs | rs6903608 |
Merged | 0 |
SNP id current | 6903608 |
Context | intron_variant |
Intergenic | 1 |
Allele frequency | 0.27 |
P value | 5E-27 |
Pvalue mlog | 26.3010299956639 |
P value text | |
Or beta | 1.62 |
%95 Ci | [NR] |
Platform | Illumina [296129] |
CNV | N |
Mapped trait | Hodgkins lymphoma |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0000183 |
Study accession | GCST002237 |
PubMed ID | 22086417 |
Journal | Blood |
Link | www.ncbi.nlm.nih.gov/pubmed/22086417 |
Study | A genome-wide meta-analysis of nodular sclerosing Hodgkin lymphoma identifies risk loci at 6p21.32. |
Disease/Trait | Nodular sclerosis Hodgkin lymphoma |
Initial sample | 393 European ancestry cases, 3,315 European ancestry controls |
Replication sample | 113 European ancestry cases, 214 European ancestry controls |
Region | 6p21.32 |
Chromosome id | chr6;6;6;6;6 |
Chromosome position | 32460508;32604474;32142202;32415331;32416944 |
Reported gene | HLA-DQB1, HLA-DRB1 |
Mapped gene | HLA-DRA - HLA-DRB5; HLA-DRB1 - HLA-DQA1; FKBPL - PRRT1; BTNL2 - HLA-DRA; BTNL2 - HLA-DRA |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs6903608-T; rs2858870-C; rs204999-G; rs9268528-A; rs9268542-A |
SNPs | rs6903608; rs2858870; rs204999; rs9268528; rs9268542 |
Merged | 0 |
SNP id current | |
Context | intron_variant; intron_variant; intergenic_variant; intergenic_variant; intergenic_variant |
Intergenic | |
Allele frequency | NR |
P value | 0.000000000000000008 |
Pvalue mlog | 17.096910013008 |
P value text | |
Or beta | 2.5 |
%95 Ci | [NR] |
Platform | Illumina [705591] |
CNV | N |
Mapped trait | nodular sclerosis Hodgkin lymphoma |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004708 |
Study accession | GCST001323 |
PubMed ID | 22086417 |
Journal | Blood |
Link | www.ncbi.nlm.nih.gov/pubmed/22086417 |
Study | A genome-wide meta-analysis of nodular sclerosing Hodgkin lymphoma identifies risk loci at 6p21.32. |
Disease/Trait | Nodular sclerosis Hodgkin lymphoma |
Initial sample | 393 European ancestry cases, 3,315 European ancestry controls |
Replication sample | 113 European ancestry cases, 214 European ancestry controls |
Region | 6p21.32 |
Chromosome id | chr6;6;6;6;6 |
Chromosome position | 32460508;32604474;32142202;32415331;32416944 |
Reported gene | HLA-DQB1, HLA-DRB1 |
Mapped gene | HLA-DRA - HLA-DRB5; HLA-DRB1 - HLA-DQA1; FKBPL - PRRT1; BTNL2 - HLA-DRA; BTNL2 - HLA-DRA |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs6903608-C; rs2858870-T; rs204999-A; rs9268528-G; rs9268542-G |
SNPs | rs6903608; rs2858870; rs204999; rs9268528; rs9268542 |
Merged | 0 |
SNP id current | |
Context | intron_variant; intron_variant; intergenic_variant; intergenic_variant; intergenic_variant |
Intergenic | |
Allele frequency | NR |
P value | 0.0000002 |
Pvalue mlog | 6.69897000433601 |
P value text | |
Or beta | 1.7 |
%95 Ci | [NR] |
Platform | Illumina [705591] |
CNV | N |
Mapped trait | nodular sclerosis Hodgkin lymphoma |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0004708 |
Study accession | GCST001323 |