PMC:1271393 / 24890-26863 JSONTXT

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/1271393","sourcedb":"PMC","sourceid":"1271393","source_url":"https://www.ncbi.nlm.nih.gov/pmc/1271393","text":"To assess the patterns of LD in the CD209/CD209L region, haplotypes for the entire genomic region were reconstructed using markers with an MAF of 10%. D′ measures among these markers were estimated for African and non-African populations independently; the graphical representation of LD levels is illustrated in figure 3 . Two distinct regions, which correspond to either CD209 or CD209L, showed strong LD and are separated by a boundary that corresponds to the intergenic region. For CD209, a block of intragenic LD was observed in both African and non-African populations. For the African sample, 89% of all pairwise comparisons indicated significant levels of LD, whereas, for non-Africans, all D′ pairwise comparisons were significant. The magnitude of intragenic recombination (and/or gene conversion) of CD209L was slightly higher than for CD209. Nevertheless, considerable and significant levels of LD were observed between sites: 83% of all LD pairwise comparisons were significant in the African group, and 99% were in the non-African sample. Overall, CD209 exhibited a blocklike structure in both groups, whereas CD209L presented lower—although mostly significant—LD levels, in particular among the non-African sample.\nFigure 3 Pairwise D′ LD plots in non-African and African populations. European and East Asian samples were plotted together as “non-Africans” because they showed similar levels of LD (data not shown). Red tags indicate the physical position of each SNP across the genomic region studied. Blue and green lines label the SNPs (MAF\u003e10%) used for CD209 and CD209L, respectively, in the LD plot. For CD209, 47 SNPs presented an MAF\u003e10% in the African sample and 5 in the non-African, whereas, for CD209L, 18 SNPs showed an MAF\u003e10% in Africans and 20 in non-Africans. The high prevalence of SNPs with MAF\u003e10% for CD209 in Africa is due to the presence of the highly divergent cluster A, which presents 35 diagnostic variants with a frequency of 15%.","divisions":[{"label":"label","span":{"begin":1230,"end":1238}}],"tracks":[]}