In order to assess the probability of observing 17/84 or more functional interactions between BDNF and other genes, we had to make an assumption regarding the total number of human genes that iHOP uses.
Although the pathway and GO information provided one of these types of networks, we used a more comprehensive functional interaction database (Reactome FI) [ 16] to obtain functional subgroup networks composed of co-expressed genes induced by helveticoside treatment.
It is widely believed that the dynamic network reveals more accurate functional interactions between proteins than static PPIN and also a better dynamic network construction method should achieve better functional module analysis results.
Instead of deleting Cblb, we designed a more prudent strategy to specifically disrupt the NurRE region in the endogenous Cbl-b promoter using CRISPR/Cas9 genome editing tool, thus more precisely dissecting the functional interaction among Nur77, Cbl-b, and NFATc1.
More specific evidence of functional interaction between ACC and AIC comes from a study by Sridharan et al. (2008), which identified a fronto-insular cingulate system involved in switching between default mode and central executive networks.
The data presented here on the clock-dependent control of mTOR signaling extend our understanding of physiological regulation of the mTOR pathway and provide with potential molecular mechanisms; further studies will result in a more detailed picture of functional interaction between two important regulators of metabolism and aging – the circadian clock and TOR pathway.
For example, very few SLiMs listed in the current databases relate to the regulatory interaction between transcription factors (TFs) (Dinkel et al., 2014), suggesting that this particular type of functional interaction is more difficult to capture than others.
These results suggest that cyclophilin has more functional activities in the incompatible interaction.
In brief, the FI network covers ~50% of the human proteome representing more than 200,000 functional interactions.
To explore in more detail the functional interactions of the identified kinase and phosphatase genes, we examined the effects of combined RNAi treatments.
