RCR integrates large-scale transcriptomic data into biological meaning by identifying higher level upstream controllers of specific gene expression.
RCR 24 is a knowledge-driven approach used to identify high-level upstream controllers, HYPs, which could explain the observed differential gene expression profiles.
27 The RCR method 24 integrates large-scale transcriptomics data into a biological context using information from differentially expressed genes together with a priori knowledge of cause and effect relationships to identify high-level upstream controllers of the observed gene expression called hypotheses (HYPs) (for details, see Refs. 25– 25).
In general, fast action is made by the enzyme level regulation such as the feed-forward activation of pyruvate kinase (Pyk) by fructose 1,6-bisphosphate (FBP), and the feedback inhibition of phosphofruct kinase (Pfk) by phosphoenol pyruvate (PEP), a motif that enables a high level of the upstream metabolite to lower the level of the downstream metabolite [117] (Figure 3a).
None of the tumors contained insertions at more than one family member, but in each case proviral insertion was associated with a high level of expression from the upstream (P1) promoter of the respective target gene.
We show that the length of time birds stay in rLBMs can severely limit transmission there, but that the system-wide effect may be reduced substantially by high levels of transmission upstream of retail markets.
Multiple sequence alignments showing high level of sequence conservation and flanked by upstream promoters and downstream terminators are predicted as putative sRNAs.
The local context of the MEE2-related core motifs shows a high level of sequence similarity that includes a prominent upstream poly-dT stretch.
A 1.9 kb fragment of the Sesbania rostrata leghemoglobin glb3 5′-upstream region was found to direct a high level of nodule-specific GUS activity in lotus.
26, 27 In the VSG system, the unstable, 70-bp repeats lying upstream of the expressed VSG are thought to precipitate a high level of recombination (see below).
Adjacent and upstream of this putative operon is the small RNA sRNA-1, which was expressed at a very high level as compared to pXO1_0123 through pXO1_0125.
