Earlier versions of TargetScan, like Release 4, used simpler definitions of miRNA families and sites.Sites present in all three species are classified as conserved. briggsae are classified as conserved, and For TargetScanWorm 5 and 6, miRNA families present in C.For TargetScanFly 5 and 6, miRNA families conserved beyond the Sophophora subgenus are classified as conserved,Īnd sites with branch lengths of at least 3.16 (60% of the total branch length) are classified as conserved.6mer sites (TargetScanHuman 7 only) are always classified as nonconserved.For miRNA sites in TargetScan 5 - 7 (Human and Mouse), site conservation is defined by conserved branch length, with each site type having a different threshold for conservation:.conserved = conserved across most mammals, but usually not beyond placental mammals (Supplemental Tables 2 & 3 of Friedman et al.).broadly conserved = conserved across most vertebrates, usually to zebrafish (Supplemental Table 1 of Friedman et al.).For miRNA families in TargetScan 6 (Human and Mouse), conservation cutoffs are as if Friedman et al.For miRNA families in TargetScanHuman 7, conservation of some families were modified from those in TargetScan 6, based on careful analysis of multiple-sequence miRNA alignments.What are the definitions of "conserved miRNA families","nonconserved miRNA families","conserved miRNA sites" and "nonconserved miRNA sites"?.
TargetScan Frequently Asked Questions (FAQs) TargetScan 7 Frequently Asked Questions (FAQs)
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