The structures were optimised using the TZVPP basis [8] with the BLYP density functional, including a dispersive correction [9].
Accordingly, this functional category includes almost half of the genes that are under direct transcriptional control by DtxR.
This functional category includes protein quality control, which is a network of cellular processes that in an orchestrated manner works against protein misfolding and aggregation.
This functional module included 17 genes implicated in the immune response (including several GO terms, such as chemokine, defensin precursors and Toll-like receptor signalling pathway, among others) located in seven different macaque EBRs (Table 2, Additional file 4: Table S3).
Genes encoding innate immunity-associated proteins also feature prominently in this functional class including several members of the complement system, C20orf114 (a member of the PLUNC family of host defense proteins) and toll-like receptor 1 (TLR1).
This functional category included the genes CHST2, T-cell receptor alpha, and haptoglobin.
Hippo signalling interacts with various other cellular processes in this functional context, including programmed cell death and cell cycling [ 184].
This functional class included several toll like receptors (TLR2, 3 and 5) in particular TLR3 and TLR5 expression underwent extensive variation in SSc patients after iloprost infusion (F.C. -55.82 and -27.49 before treatment to F.C. -6.59 and + 2.03 after treatment).
The last part is dedicated to convex and log-concave functionals, including a proof of the Gaussian conjecture for a particular class of log-concave Wiener functionals.
Different from existing ones, the designed Lyapunov Krasovskii functionals include negative terms, which lead to less conservative results.
