Our data, however, do not rule out that GPCRs might regulate additional pathways in control of autophagy; nor do we exclude the possibility that ZBTB16 has substrates, in addition to Atg14L, in regulating autophagy.
We have added one sentence at the end of first paragraph of the Discussion: "Our data, however, do not rule out that GPCRs might regulate additional pathways in control of autophagy, nor do we exclude the possibility that ZBTB16 has substrates, in additional to Atg14L, in regulating autophagy".
We noted that the presence of a Mig1 site in a gene correlated with high induction (Fig. 3B) and that overall, our analysis provides a highly complete description of how three transcriptions factors might regulate the 146 induced genes of Additional file 1 (Fig. 3C).
This includes the closely related homologues BRWD1 and BRWD3, which are likely to encode transcriptional regulators (Additional file 1, Table S1), and, hence, might regulate the expression of other genes in the group.
Among the 1,285 DEGs from the two tissues, we identified 91 transcription factors, which might regulate downstream components of exercise-triggered signaling pathways (Additional file 1: Table S19).
Taken together, our data provide insight into additional mechanisms by which SF-1 might regulate adrenal development during fetal life.
Alternatively or in addition, MrpC binding to the same site might regulate the divergent promoter of MXAN_7439 (epsJ), which is likely co-transcribed with nla24 (MXAN_7440, aka epsI; Additional file 6).
These four genes all have putative CRE sites (Additional file 4) in their upstream regions or ORFs, suggesting that CcpA might regulate them directly.
We identified several other cases of potential non-coding small RNAs that might regulate expression of genes involved in fatty acid and central carbon metabolism under nitrogen limitation (Additional file 7, Table S4).
That we did not observe the same result for lysozyme and avidin could be because additional hormones (e.g., progesterone for avidin synthesis) or different concentrations of estrogen might regulate the production of specific albumen proteins (Palmiter 1972).
This difference in expression levels between members was characteristic of many genomic clusters (Additional file 9), suggesting that a precursor specific event during the miRNA maturation process might regulate the expression levels of individual miRNAs in a genomic cluster.
