The first genomewide association for vitamin D serum levels is already online as the Framingham people told me earlier this day, many thanks!
There are 3 important regions on the above figure figure: around rs1394615, rs1877165 and rs2160595, see also the attached excel sheet fram25ohdexam6or7agesexadj.xls.
What are the reasons that my linkage study arrived at completely different regions? The accompanying BMC Genetics paper even highlights 2 different SNPs: rs1048516 + rs10507577). Anyway, the best region in my opinion is on chromosome 6. Here are the significant SNPs in relation to their neighboring genes:
The phosphodiesterase PDE10A on the right is leading to PUBMED entries on schizophrenia and diabetes. Asthma is also not so far away with phosphodiesterase inhibitors like theophylline. Isn’t that nice? Quaking (QKI) on the left is also a schizophrenia gene, and defective smooth muscle in QKI k.o. may relate to asthma as well.
Does LD explain joint SNP effects?
maybe, maybe not… Is it a known candidate region?
