Table 3. Phosphorylation summary per protein. Mean ratios per gene were computed using its phosphosites’ phosphorylation ratios and a ratio cutoff was applied to define hyperphosphorylation (hyperP) and dephosphorylation (deP) states or no change over the threshold (NC).
| Protein | H3255 | H1975 | Pathway (KEGG ID) | Circuit | Signalling | Node Proteins |
|---|---|---|---|---|---|---|
| ADCY2 | deP | deP | Calcium signaling pathway (hsa04020) | CHRM1-ATP2A1 | Down | ADCY1 ADCY2 ADCY3 ADCY7 ADCY8 ADCY9 ADCY4 |
| SPECC1L | deP | NA | Calcium signaling pathway (hsa04020) | CHRM1-ATP2A1 | Down | CHRM1 CHRM3 CHRM5 ADORA2A SPECC1L ADORA2B ADRB1 ADRB2 ADRB3 DRD1 DRD5 HRH2 HTR4 HTR5A HTR6 HTR7 |
| ATP2A2 | NC | NA | Calcium signaling pathway (hsa04020) | CHRM1-ATP2A1 | Down | ATP2A1 LOC100510514 ATP2A2 ATP2A3 |
| ADCY9 | hyperP | NA | Calcium signaling pathway (hsa04020) | GPCR-SERCA | Down | ADCY1 ADCY2 ADCY3 ADCY7 ADCY8 ADCY9 ADCY4 |
| AKT1 | deP | hyperP | Insulin signaling pathway (hsa04910) | SKIP(INPP5K)-aPKC | Up | AKT3 AKT1 AKT2 |
| PDPK1 | deP | NA | Insulin signaling pathway (hsa04910) | SKIP(INPP5K)-aPKC | Up | PDPK1 |
| DFFA | hyperP | NA | Apoptosis (hsa04210) | DFFB-DFFA | Down | DFFA |
| ICAM1 | NA | deP | Cell adhesion molecules (CAMs) (hsa04514) | ICAM1,2,3-ITGAL | Down | ICAM1 |
| IKBKB | deP | NA | Adipocytokine signaling pathway (hsa04920) | TNF-NPY | Up | CHUK IKBKB IKBKG |
| NFKB2 | NA | NC | Adipocytokine signaling pathway (hsa04920) | TNF-NPY | Up | NFKB1 NFKB2 RELA |
| PRKAA1 | NC | NA | Adipocytokine signaling pathway (hsa04920) | TNF-NPY | Up | PRKAG2 PRKAG3 PRKAA1 PRKAA2 PRKAB1 PRKAB2 PRKAG1 |
| PRKAA2 | NC | NA | Adipocytokine signaling pathway (hsa04920) | TNF-NPY | Up | PRKAG2 PRKAG3 PRKAA1 PRKAA2 PRKAB1 PRKAB2 PRKAG1 |
| STAT3 | NA | deP | Adipocytokine signaling pathway (hsa04920) | TNF-NPY | Up | STAT3 |
| TRAF2 | hyperP | hyperP | Adipocytokine signaling pathway (hsa04920) | TNF-NPY | Up | TRAF2 |
| MAPK1 | deP | deP | Wnt signaling pathway (hsa04310) | Nkd-RhoA | Down | MAPK8 MAPK9 MAPK10 |
| MAPK1 | deP | deP | Melanogenesis (hsa04916) | SCF(KITLG)-DCT | Up | MAPK1 MAPK3 |
| MAP2K2 | deP | deP | Melanogenesis (hsa04916) | SCF(KITLG)-DCT | Up | MAP2K1 MAP2K2 |
| MAPK3 | deP | deP | Melanogenesis (hsa04916) | SCF(KITLG)-DCT | Up | MAPK1 MAPK3 |
| MITF | NA | hyperP | Melanogenesis (hsa04916) | SCF(KITLG)-DCT | Up | MITF |
| RAF1 | hyperP | NA | Melanogenesis (hsa04916) | SCF(KITLG)-DCT | Up | RAF1 |
| TP53 | hyperP | hyperP | p53 signaling pathway (hsa04115) | MDMX-Wip1(PPM1D) | Down | TP53 |
NCs indicate that the protein exist although the phosphorylation status has nos significantly changed. NAs correspond to conditions for which no data are available. For easier identification, circuits have been named according the names of the input and output nodes as they appear in KEGG. The column labelled as signaling contains indications on the change in signal activity of the circuits as predicted by the Pathiways tool30 using transcriptomic data of the untreated cell lung line vs the Erlotinib treated one. The last column contains the proteins present in the node of the protein for which phosphorylation data is available.