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All 29 genes that displayed regulation after shift from three days of growth at 34°C to 4°C for 2 hrs were restored to their original levels of expression after being shifted back to 34°C from 4°C. (Table 1).
Interestingly, neither nerve cells nor endothelial cells stimulated with cytokines displayed regulation of neurotrophic or angiogenic factor expression, which was in stark contrast to the responses seen within stimulated NP cells.
More than 70% of eQTLs displayed regulation in trans at a genome-wide corrected P-value of ≤0.05, which conforms to previous studies in inbred rodent strains (14, 68).
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Under therapeutic pressure by CPA, tumors of HUH-PAS and HUH-REISO displayed regulations in Notch-1 and Notch-3 expression.
The network displays regulation of these molecules as well as Angpt1 (angiopoietin1), which binds and activates the Tek/Tie2 endothelial-specific receptor tyrosine kinase, Efnb2 (ephrinB2) [176], Cdh5 (cadherin 5) and Ptprb (protein tyrosine phosphatase, receptor type, B or vascular endothelial tyrosine phosphatase).
The genes displaying the strongest inverse correlation included four genes related to cancer processes: SERPINB1, which promotes cancer cell motility in invasive oral squamous cell carcinoma [ 26], EMP3, which displays regulation through promoter methylation in gliomas [ 27], FABP5, which mediates EGFR-induced carcinoma cell growth [ 28], and CBR1, which is involved in tumor progression [ 29, 30].
A total of 365 genes were down regulated and 175 genes displayed up regulation (Fig S1).
With a cut-off of 1.5-fold, 41 out of 54 miRNAs displayed up-regulation or down-regulation in one or more organ (Additional file 1: Table S6).
It is notable that in most cases, the gene regulation patterns were the same between Luminal A and Luminal B subtype samples, as only 9 genes displayed different regulation between these 2 subtypes.
Only two small subsets of genes (8.3% of all, clusters III and IV) displayed inverse regulation between psoriasis and PPARβ/δ mice.
However, in the case of the A. macleodii strains studied here each cassette displayed independent regulation.
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