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A similar and balanced allelic expression between parents and hybrids indicated conserved regulation, whereas a conserved unbalanced allelic expression between parents and hybrids was the signature of parental cis-regulatory divergences, and a balanced allelic expression only in hybrids revealed parental trans-regulatory divergences.
We discuss maternal control of the early embryonic epigenetic landscape, selective usage of enhancer clusters via 3D chromatin contacts leading to activation of transcription factor networks, and conserved regulation of developmental pathways by specific DNA demethylation of key regulatory regions.
The data herein provide statistical evidence for conserved regulation via AS-NMD candidature across Mammalia, for a large subset of genes.
The similar tendency in ESE usage in human and mouse also seem to have confirmed the significance of regulatory elements in alternative splicing and conserved regulation by such elements [8], [21], [25], [30], [36].
Here, we used two divergent model systems to study conserved regulation of signals by the endosomal protein Asrij.
Moreover, verification relationships between AGO genes and miRNAs reveal conserved regulation between AGOs and miRNAs, functions of which are still unknown in tomato.
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With that information, we can identify evolutionarily conserved regulations in the target organisms.
The experimental version only contains experimentally validated regulations whereas the predicted version additionally contains the transferred evolutionarily conserved regulations as well.
Furthermore, the automated transfer of evolutionarily conserved regulations has a main limitation: Only regulations already known in model organisms can possibly transferred to the target organisms.
Thus, one key aspect of CMRegNet is the automated transfer of evolutionarily conserved regulations of these model organisms to the so called target organisms.
For example, in M. abscessus the gene MAB_0416c was identified as a homologous protein to glxR and through the network transfer, CMRegNet now shows 102 conserved regulations.
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