4 ms·

More info: the SNP is rs9367106 ( https://www.ncbi.nlm.nih.gov/snp/rs9367106 https://www.ncbi.nlm.nih.gov/snp/rs9367106 ) Preprint is at https://www.medrxiv.or

More info: the SNP is rs9367106 ( https://www.ncbi.nlm.nih.gov/snp/rs9367106 https://www.ncbi.nlm.nih.gov/snp/rs9367106 ) Preprint is at https://www.medrxiv.org/content/10.1101/2023.06.29.23292056v1.full-text https://www.medrxiv.org/content/10.1101/2023.06.29.23292056v... . A link to the UCSC genome browser of the location of the SNP : https://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=chr6%3A41485502-41545801 https://genome.ucsc.edu/cgi-bin/hgTracks?db=hg38&position=ch... The location in question is upstream of FOXP4 and in an intron of two genes: FOXP4-AS1 and LINC01276

aaauaucuggaa 3y ago
Thank you very much for sharing these links, a SNP id and browser link was exactly what I was looking for!
matrix_overload 3y ago
From the first link: Global 16326 G=0.95075 C=0.04925 European 12074 G=0.97896 C=0.02104 African 2816 G=0.9052 C=0.0948 Asian 108 G=0.630 C=0.370 So, roughly 5% of the population is affected, lower risk for European ancestry, much higher risk for Asians (37%, but the sample size is rather low).
- causi 3y ago
  Is the African referenced from samples from Africa or from African-Americans?
  - dekhn 3y ago
    Africa (continent), there is a different row for African Americans. And "African (Other)"
bears-n-beets 3y ago
Pardon my ignorance - what does it mean to have SNP rs1983891 (what pops up when I search FOXP4 in my Promethease report) but not rs9367106? I have only rs1983891(C;C).
- oaktrout 3y ago
  Probably no relevance to the topic at hand. This research applies only to the documented SNP. Unrelated, you may have some increased risk for prostate cancer: https://www.snpedia.com/index.php/Rs1983891 https://www.snpedia.com/index.php/Rs1983891
  - qclibre22 3y ago
    You're probably right. Look at figure 3 in the paper. The effect is for region upstream of FOXP4. The reported Prometheus snp ( rs1983891 ) is not in this region, it is in an intron in FOXP4.
  - bears-n-beets 3y ago
    Interesting. Glad I don't have a prostate then! :)

aaauaucuggaa 3y ago

Thank you very much for sharing these links, a SNP id and browser link was exactly what I was looking for!

matrix_overload 3y ago

From the first link: Global 16326 G=0.95075 C=0.04925 European 12074 G=0.97896 C=0.02104 African 2816 G=0.9052 C=0.0948 Asian 108 G=0.630 C=0.370 So, roughly 5% of the population is affected, lower risk for European ancestry, much higher risk for Asians (37%, but the sample size is rather low).

causi 3y ago
Is the African referenced from samples from Africa or from African-Americans?
- dekhn 3y ago
  Africa (continent), there is a different row for African Americans. And "African (Other)"

bears-n-beets 3y ago

Pardon my ignorance - what does it mean to have SNP rs1983891 (what pops up when I search FOXP4 in my Promethease report) but not rs9367106? I have only rs1983891(C;C).

oaktrout 3y ago
Probably no relevance to the topic at hand. This research applies only to the documented SNP. Unrelated, you may have some increased risk for prostate cancer: https://www.snpedia.com/index.php/Rs1983891 https://www.snpedia.com/index.php/Rs1983891
- qclibre22 3y ago
  You're probably right. Look at figure 3 in the paper. The effect is for region upstream of FOXP4. The reported Prometheus snp ( rs1983891 ) is not in this region, it is in an intron in FOXP4.
- bears-n-beets 3y ago
  Interesting. Glad I don't have a prostate then! :)