6254a2f3273acb0889ba875ffab273f0099cea16 galt Tue May 21 00:17:23 2019 -0700 Fixe problems found by htmlCheck validate and hgNearTest robot diff --git src/hg/makeDb/trackDb/human/bipolar.html src/hg/makeDb/trackDb/human/bipolar.html index 6ee03dd..bc99486 100644 --- src/hg/makeDb/trackDb/human/bipolar.html +++ src/hg/makeDb/trackDb/human/bipolar.html @@ -3,33 +3,33 @@ This track displays the p-values (-log<sub>10</sub>) of the Bipolar disease pooled data reported by NIMH in their Molecular Psychiatry paper. They performed a Genome Wide Association study on two populations: <UL> <LI>US - European Descent, 461 cases in 7 pools, 563 controls in 9 pools</LI> <LI>DE - German, 772 cases in 13 pools, 876 controls in 10 pools</LI> </UL></P> <H2>Methods</H2> <P> Reported p-values are taken for each of the Illumina550 probes on the genome, then logged and minused for visualization purposes. These p-values have not been Bonferroni adjusted. US cases had an affected sibling. 96% of German sample reported both parents and grandparents were born in Germany. The German sample was used to replicate the US sample. The following -conditions were applied to the US sample: pval < 0.05, Odds Ratio > 1.4 or < 0.71, -Relative Allele Frequency > 0.05, required to be near a known gene, -and finally replicated in the German sample with pval < 0.05. The results +conditions were applied to the US sample: pval < 0.05, Odds Ratio > 1.4 or < 0.71, +Relative Allele Frequency > 0.05, required to be near a known gene, +and finally replicated in the German sample with pval < 0.05. The results left 88 SNPs in 80 genes. <p> When individually genotyped, 76% remained significant in US, and 36% of those remained significant in the German sample. Combined p-values were also calculated for the SNPs yielding the most significant find rs1012053 pvalue = 1.5e-8 for the gene DGKH diacylglyceral kinase, which is still significant after Bonferroni adjustment. DGKH protein is key in the lithium-sensitive phosphatidyl inositol pathway. Several other risk SNPs were identified of small effect. </P> <P> For the complete dataset, visit <A HREF="http://mapgenetics.nimh.nih.gov/">The National Instututes of Mental Health (NIMH) MAP Genetics Web Site</A>. </P> <H2>References</H2>