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, 19:08, 10 September 2012
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| Human mutations don't occur randomly. In fact, transitions (changes from A <-> G and C <-> T) are expected to occur twice as frequently as transversions (changes from A <-> C, A <-> T, G <-> C or G <-> T). Thus, another useful diagnostic is the ratio of transitions to transversions in a particular set of SNP calls. This ratio is often evaluated separately for previously discovered and novel SNPs. | | Human mutations don't occur randomly. In fact, transitions (changes from A <-> G and C <-> T) are expected to occur twice as frequently as transversions (changes from A <-> C, A <-> T, G <-> C or G <-> T). Thus, another useful diagnostic is the ratio of transitions to transversions in a particular set of SNP calls. This ratio is often evaluated separately for previously discovered and novel SNPs. |
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− | Across the entire genome the ratio of transitions to transversions is typically around 2. In protein coding regions, this ratio is typically higher, often a little above 3. The higher ratio occurs because, especially when they occur in the third base of a codon, transitions are much more likely to change the encoded amino acid. A refinement to this analysis, in protein coding regions, is to examine the transition to transversion ratio separately for non-degenerate, two-fold degenerate, three-fold degenerate and four-fold degenerate sites. | + | Across the entire genome the ratio of transitions to transversions is typically around 2. In protein coding regions, this ratio is typically higher, often a little above 3. The higher ratio occurs because, especially when they occur in the third base of a codon, transversions are much more likely to change the encoded amino acid. A refinement to this analysis, in protein coding regions, is to examine the transition to transversion ratio separately for non-degenerate, two-fold degenerate, three-fold degenerate and four-fold degenerate sites. |
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| == Why Are Reciprocal Changes Not Equally Frequent? == | | == Why Are Reciprocal Changes Not Equally Frequent? == |
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| More often than not, we expect that the reference genome will include the most common allele, which is also likely to be the ancestral allele. Thus, if C->T mutations are more common than T->C mutations, we expect to see an imbalance of C->T versus T->C changes. Further, when comparing rare and common variants, we expect the imbalance to be stronger for lower frequency variants. | | More often than not, we expect that the reference genome will include the most common allele, which is also likely to be the ancestral allele. Thus, if C->T mutations are more common than T->C mutations, we expect to see an imbalance of C->T versus T->C changes. Further, when comparing rare and common variants, we expect the imbalance to be stronger for lower frequency variants. |
− | [http://www.escorttr.com/ escort bayan]
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