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The only conserved peak in all four species corresponded exactly with a region encompassing the conserved antisense miRNA, mir-431.
LPS leads to greater dose-dependent delay than TNF and a more conserved peak shape.
Second, even within this framework of conserved peak and trough locations, the actual GC3s values of orthologous genomic regions can shift significantly and systematically between species (figs. 1 and 2).
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Accordingly, Terajima et al. (13 ) demonstrated that T-cell responses to vaccinia and variola conserved epitopes peak 14 days after primary immunization with vaccinia virus.
The conserved intensity peaks showed no obvious enrichment for liver-related functions.
All pairwise comparison values correspond to the average of reciprocal comparisons between both species (e.g., human peaks conserved in dog and dog peaks conserved in human).
To identify H3K27me3 peaks conserved between cell lines and called by independent means, we used only those MACS-called peaks that overlapped between our H3K27me3 peak set and those identified by the Encode project (Grant et al., 2011).
As shown on Figure 4a', a magnification of the lampreys ar-C conservation peaks identifies two to four highly conserved blocks (pink on Fig. 4A') for LfHhb and PmHha, respectively.
If we consider consensus sequence to be a proxy for ancestral sequence, then the high peak represents conserved elements, flanked by the diverged and possibly eroded repeats.
Parts of the genomic region spanning the H3K27ac peak are conserved in the cow, but found on another chromosome than EDARADD (chr8 instead of 28); and no homologous region is found in dog; suggesting that if there is a third EDARADD alternative promoter, which we find unlikely, it would not be conserved in mammals.
Although more ancestral CNSs are peaks of long conserved regions, younger CNSs seem to be peak of poorly conserved regions.
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