Human SNP ID | rs9905704 |
---|---|
Human chromosome | chr17 |
Human SNP position | 58555182 |
Pig chromosome | chr12 |
Pig SNP position | 36001181 |
PubMed ID | 23666240 |
---|---|
Journal | Nat Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/23666240 |
Study | Identification of nine new susceptibility loci for testicular cancer, including variants near DAZL and PRDM14. |
Disease/Trait | Testicular germ cell tumor |
Initial sample | 986 European ancestry cases, 4,946 European ancestry controls |
Replication sample | 1,064 European ancestry cases, 10,082 European ancestry controls |
Region | 17q22 |
Chromosome id | chr17 |
Chromosome position | 58555182 |
Reported gene | RAD51C, TEX14 |
Mapped gene | SEPT4-AS1 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 101927688 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs9905704-T |
SNPs | rs9905704 |
Merged | 0 |
SNP id current | 9905704 |
Context | intron_variant |
Intergenic | 0 |
Allele frequency | 0.67 |
P value | 0.000000003 |
Pvalue mlog | 8.52287874528033 |
P value text | |
Or beta | 1.21 |
%95 Ci | [1.10-1.34] |
Platform | Illumina [307291] |
CNV | N |
Mapped trait | testicular carcinoma |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0005088 |
Study accession | GCST002022 |
PubMed ID | 23666239 |
Journal | Nat Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/23666239 |
Study | Meta-analysis identifies four new loci associated with testicular germ cell tumor. |
Disease/Trait | Testicular germ cell tumor |
Initial sample | 582 European ancestry male cases, 1,056 European ancestry male controls |
Replication sample | 3,560 European ancestry male cases, 8,510 European ancestry male controls |
Region | 17q22 |
Chromosome id | chr17 |
Chromosome position | 58555182 |
Reported gene | C17orf47, RAD51C, PPM1E, SEPT4, TRIM37, SKA2, TEX14 |
Mapped gene | SEPT4-AS1 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 101927688 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs9905704-T |
SNPs | rs9905704 |
Merged | 0 |
SNP id current | 9905704 |
Context | intron_variant |
Intergenic | 0 |
Allele frequency | 0.68 |
P value | 0.0000000000004 |
Pvalue mlog | 12.397940008672 |
P value text | |
Or beta | 1.27 |
%95 Ci | [1.18-1.33] |
Platform | Illumina [NR] |
CNV | N |
Mapped trait | testicular carcinoma |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_0005088 |
Study accession | GCST002023 |
PubMed ID | 25877299 |
Journal | Hum Mol Genet |
Link | www.ncbi.nlm.nih.gov/pubmed/25877299 |
Study | Two new loci and gene sets related to sex determination and cancer progression are associated with susceptibility to testicular germ cell tumor. |
Disease/Trait | Testicular germ cell tumor |
Initial sample | 1,326 European ancestry cases, 6,687 European ancestry controls |
Replication sample | 710 European ancestry case-parent triads, 289 European ancestry cases, 290 European ancestry controls |
Region | 17q22 |
Chromosome id | chr17 |
Chromosome position | 58555182 |
Reported gene | TEX14 |
Mapped gene | SEPT4-AS1 |
Upstream gene id | |
Downstream gene id | |
SNP gene ids | 101927688 |
Upstream gene distance | |
Downstream gene distance | |
SNP risk allele | rs9905704-T |
SNPs | rs9905704 |
Merged | 0 |
SNP id current | 9905704 |
Context | intron_variant |
Intergenic | 0 |
Allele frequency | 0.708 |
P value | 0.000004 |
Pvalue mlog | 5.39794000867203 |
P value text | |
Or beta | 1.23 |
%95 Ci | [NR] |
Platform | Illumina [610240] |
CNV | N |
Mapped trait | Testicular Germ Cell Tumor |
Mapped trait URI | http://www.ebi.ac.uk/efo/EFO_1000566 |
Study accession | GCST002855 |