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These observations may indicate regulatory roles for sex chromosomes in mediating disease susceptibility.
Identifying conserved over-represented motifs by ordering genes in this manner may indicate regulatory control for a particular motif.
Interestingly, many regulators shared between the phytopathogens are differentially expressed in a lineage-specific pattern that may indicate regulatory divergence for these loci.
Further analysis was based on the hypothesis that overrepresentation of potential transcription factor binding site (TFBS) motifs in a set of co-expressed gene promoters may indicate regulatory relationship.
Examples include: regulatory network reconstruction (Dojer et al., 2006; Husmeier, 2003) where nodes represent genes and edges represent statistical dependencies which may indicate regulatory interactions; predicting gene expression from promoter sequence (Beer and Tavazoie, 2004; Segal et al., 2003) where edges lead from promoter features (motif occurrences, their positions, etc).
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Finally, the differential expression in Polistes larvae of genes and proteins also differentially expressed during queen vs. worker caste development in honey bees may indicate that regulatory mechanisms of caste outcomes share similarities between primitively eusocial and advanced eusocial Hymenoptera.
This may indicate different regulatory patterns for the Late genes.
Thus, genes with high cross-correlations will have high weights that may indicate their regulatory importance.
Accordingly, subcellular localization of rice SAPK4 in both cytoplasm and nucleus may indicate similar regulatory mechanisms of transcriptional control by the kinase in plant cells.
The relative lack of promoter hypomethylation in the cancer genome relative to the higher frequency of promoter hypermethylation may indicate different regulatory mechanisms and roles in carcinogenesis (reviewed in [ 76, 77]).
Indeed transcription in germ cells substantially differs from that of soma in its requirements for kinases involved in regulating RNA Pol II's activation, which may indicate some regulatory steps are not required in this lineage [ 97].
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