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For a given TF identified to be activated, we describe the algorithm as following.
Additionally, the P63- Irf6 signaling pathway has been identified to be activated by canonical Wnt signaling, which was associated with the growth and fusion of facial processes growth and fusion [ 51].
In the enriched pathway analysis, some common and cell-type specific signaling pathways were identified to be activated in PVCs and MRCs during osmotic stress (Fig. 10; Additional file 10).
However, only three operons have been identified to be activated by the phosphorylated SphR, including the operons sphX-pstS1-C1-A1-B1-B1' and pstS2-C2-A2-B2 pstS2-C2-A2-B2 pstS2-C2-A2-B2 pstS2-C2-A2-B2nity Pi uptakeachstem, and the oferon phoA-nucH, which phoA encodes an ABCaline phosphatype, and nucA an extracellular nuclease [ 12].
If one refers to more realistic studies, few molecular targets and pathways have been identified to be activated by mild oxidizing conditions or by mild shifts in the intracellular thiol/disulfide redox state, including signalling components of the Src family of protein tyrosine kinases (p59fyn and p56lck), JAK2, c-Jun amino-terminal kinases (JNKs), p38MAPK and, in some cells, ERK1/2.
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Several phosphorylation sites in the SLAC1 N-terminus have been identified to be phosphorylated by SLAC1 activating protein kinases in vitro.
We also identified several pathways to be activated in the subtypes.
Indeed, when we conducted differential analysis for the two datasets using the same set of samples, we identified similar pathways to be activated, with small differences in order/significance level.
Instead, new acid-base regulatory candidate genes were identified to be differentially expressed, including a calcium activated chloride channel, a multispanning membrane protein (transmembrane 9 superfamily protein member 4), a hyperpolarization activated cyclic nucleotide-gated potassium channel-2, tetraspanin 3 (transmembrane super family 4 member 8) and a potential integrin alpha-7.
As the microarray data did not identify minD expression to be activated by FNR, the apparent differential expression of MinD protein, revealed by proteomic analysis, is more likely to be due to a growth rate effect than to a direct effect of FNR.
In addition, a further study that focused on a smaller series of AK and cSCC from OTRs also identified the MAPK pathway to be activated in cSCC (Hameetman et al, 2013).
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