Table 1.
Top "biological functions" of mRNA molecules affected by translation regulation in LPS-activated moDCs
| Category (nr. of molecules) | Biological Function | p-value | Molecules (gene symbols) |
| Protein Synthesis (26) | biosynthesis of proteins and translation regulation | 1.73E-04 | ADAMTS5, CASP9, EEF2, EIF2A, EIF4A2, EIF4B, NCK1, PLAU, PSMC2, RBM3, RPL3, RPL5, RPL7, RPL13, RPL14, RPL15, RPL26, RPL31, RPL37, RPL38, RPL9, RPS11, SERPINB1, SRGN, UBC, UBE2K |
| RNA Post-Transcriptional Modification (12) | modification of mRNA | 8.67E-03 | CDC5L, CPSF1, DBR1, EIF4A2, EIF4B, GRSF1, HNRNPR, CPSF1, GRSF1, MAPKAPK2, ZFP36, QARS |
| Amino Acid Metabolism (11) | catabolism of L-tryptophan and dephosphorylation of amino acids | 8.57E-08 | CD80, IL6, INDO, KMO, KYNU, DUSP2, DUSP3, PPM1A, PPM1F, PPP1CB, PTPN6 |
| Cell Morphology (10) | transmembrane potential of mitochondria | 1.26E-03 | AP2A2, BNIP3, CASP9, CFLAR, IL6, MAPK9, MOAP1, NFE2L2, PTPN6, SRGN |
| Immune Cell Trafficking (8) | emigration of leukocytes | 2.08E-03 | CD44, CXCL3, CXCR4, CYTIP, GFI1, LDLR, PLAU |
| Cancer (7) | tumorigenesis of intestinal tissue | 2.64E-03 | APC, MLH1, IFI16, SMARCA2, HSPA1A, IFI16, IGFBP4 |
| Nucleic Acid Metabolism (5) | metabolism of nucleic acid component | 6.15E-04 | ATIC, MTAP, OAS1, OAS2, REXO2 |
| Cell-mediated Immune Response (4) | secretion of cytokine | 3.60E-03 | CADM1, LCP2, SRGN, GFI1 |
| Antigen Presentation (2) | antigen peptide transporter | 8.84E-03 | TAP1, TAP2 |
| Small molecule biochemistry (1) | activation by LPS | 4.21E-02 | LY96 (MD2) |
The 375 probe sets with statistically significant interaction (Additional file 4) have been analysed with the Ingenuity Pathway software. The table displays the 10 most significant biological "categories" affected by translation regulation (out of 29 found), ranked by the number of molecules per category. The significance is expressed as p-value and is based on a Fisher's exact test, calculated by the software itself. The translationally regulated mRNA molecules validated by qPCR are indicated in bold (Table 2). RPL26 has been also validated at the protein level and is underlined (Figure 6).