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Freilich and collaborators also reported that genes with tissue-specific expression patterns mainly encode for regulatory proteins involved in signal transduction activity [26].

Such genes mainly encode for secondary metabolites, secreted proteins (putative effectors) that likely interact with host molecules and putative virulence factors (fig. 2 and supplementary table S2, Supplementary Material online).

So far, the majority of validated P-deficiency-responsive miRNA target genes are transcription factors, and other target genes mainly encode for abiotic/biotic stress-responsive proteins and enzymes related to protein modification/degradation [ 25].

There are 192 virulence associated genes in the genome of S. scitamineum, among which 31 expressed in all the stages, which mainly encode for energy metabolism and redox of short-chain compound related enzymes.

Thorough analyses of RNA-seq data from early developing thymocytes and other mouse tissues indicated that long-range bidirectional transcription is an intrinsic property of a class of promoters whose associated genes mainly encode for transcriptional regulators involved in development and cell differentiation.

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Another 27 high quality nsSNPs were also identified that mainly encoded for non-virulence factors (Additional file 6).

These genes mainly encode structural proteins of the cardiac myocyte.

KCNQ1, which is located at chromosome 11p15.5 and near a candidate region at 11p13-p12 and mainly encodes a protein for a voltage-gated potassium channel required for the repolarization phase of the cardiac action potential, has been proved to be associated with type 2 diabetes mellitus (T2DM).

Interestingly, we observed after bioinformatic analysis that the stromal signature includes mainly genes encoding for secreted factors, while the tumoral signature involves mainly genes related to cell behaviors (proliferation, apoptosis, traduction, migration, and so on).

Mainly clusters encoding for acyl carrier proteins were identified, but we also identified some biosynthetic clusters such as lipopolysaccharide, capsular polysaccharide, legionaminic acid and fatty acid biosynthesis.

The list of the negatively significant genes that are common between the salinity and the combined stresses includes mainly genes encoding for proteins that are involved in the cellular growth and maintenance, like histone subunits, ribosomal small and large subunits, xyloglucan transferase, photosystems I and II subunit and RuBisCO subunit binding proteins.

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