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Table 5 Genes involved in nitrogen compound response and nitrate response clusters regulated by NRT1.1.
Table 3 Genes enriched in nitrogen compound response and transport clusters regulated by NLP7.
The resulting network (Fig. 5) consisted of a distinct self-renewal cluster composed of NANOG, SOX2, FOXD3, OCT4 (OTF3C) and differentiation-inducing network clusters regulated by transcription factors such as NKX2-2, OLHX5, LHOXB4HOXB4 and GATA1, which are themselves negatively regulated by OCT4 [9].
The Database for Annotation and Visualization and Integrated Discovery v6.7 (DAVID 6.7) [ 20, 21] was used to characterize functional gene clusters regulated by microRNA target genes.
In this study we employed a comprehensive transcriptomic approach to identify novel gene clusters regulated by CLA during atherosclerosis regression in vivo.
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Using COALESCE, the genes upregulated under iron deficiency may be separated into a subcluster regulated by a model including IDEF1BS and another cluster regulated by another model including OsIRO2BS, and we may analyze more specifically about the regulation occurred in each subgroup.
A list of the genes included in these three different clusters (cluster 1/5/7, regulated by phagocytosis; cluster 4, regulated by phagocytosis and growth conditions; cluster 2/6, regulated by growth on bacteria) is shown in the Additional Files 1, 2, 3.
Transcriptomic analysis revealed specific gene clusters preferentially regulated by salt in root apices of TN1.11, notably those related to the auxin pathway and to changes in histone variant isoforms.
The expression profiles of the clusters positively regulated by FGF signaling, together with that of FGF8, are shown in Figure 5D.
27 The miR-200b/200a/429 and miR-200c/141 clusters were regulated by diverse mechanisms.
To explore whether the predicted iron gene clusters were regulated by Fur, we sought putative Fur-binding sites in the whole genome of P. salmonis.
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