Table S7. Gene Ontology category membership for genes down-regulated in Arctic charr (Salvelinus alpinus) family 10 gill tissue. GO ID GO category description FDR P-value Genes within GO category 32501 multicellular organismal process 2.96E-08 SEPT5, MEF2C, ACVRL1, NRP1, PTGS2, PDGFA, FGFRL1, TGFB3, POSTN, PAX1, GSR, DAB2, FLI1, HEY1, CTGF, COL12A1, HTRA3, LMOD1, ERRFI1, COL11A1, PLD2, MINPP1, ARHGAP24, MYH9, PPDPF, SCEL, FMN1, ARVCF, G6PD, RHCG, GNAQ, NAV2, DLL4, OTOF, VEGFA, VAMP5, SHOX, PDGFRB, CAMK1, PRDM1, WNT9A, IQCB1, IRX3, RBP4, GCLC, CLCN2, LUM, MYL1, NTAN1, KEAP1, TIMP2, ITGB1, TIMP3, GCGR, MYOT, PAQR5, HCRTR2, FOXQ1, HOXA3, NDRG3, COL6A3, GPSM1, TGM2, CSDE1, LHX6, COL8A1, ZNF423, DNMT3A, COL4A1, LGALS3, MYO1E, NLK, FBN1, ITGA1, COL15A1, RCAN1, DPYSL3, ATP1A1, COL5A2, FURIN, COL5A1, SLC17A7, ATP7A, GCM2, LAMA4, NEDD4, ITGA5, ULK2, PTP4A1, JAK2, TCF12, MYLK, SNTA1, PLEKHA1, CACNA1B, ABCC6 32502 developmental process 4.00E-07 MEF2C, ACVRL1, NRP1, PTGS2, PDGFA, FGFRL1, TGFB3, POSTN, PAX1, DAB2, FLI1, HEY1, CTGF, COL12A1, HTRA3, ERRFI1, PLD2, MINPP1, ALDH6A1, ARHGAP24, MYH9, PPDPF, SCEL, FMN1, ARVCF, G6PD, RHCG, GNAQ, NAV2, DLL4, VEGFA, VAMP5, SHOX, PDGFRB, CAMK1, PRDM1, WNT9A, SLC40A1, IQCB1, IRX3, FRK, RBP4, SHROOM1, GCLC, CLCN2, MYL1, KEAP1, TIMP2, ITGB1, TIMP3, PAQR5, FOXQ1, HOXA3, NDRG3, COL6A3, GPSM1, TGM2, CSDE1, LHX6, COL8A1, ZNF423, DNMT3A, COL4A1, LGALS3, MYO1E, NLK, FBN1, ITGA1, COL15A1, RCAN1, DPYSL3, COL5A2, FURIN, COL5A1, ATP7A, GCM2, LAMA4, NEDD4, ITGA5, ULK2, PTP4A1, JAK2, TCF12, SNTA1, PLEKHA1 7275 multicellular organismal development 8.36E-07 MEF2C, ACVRL1, NRP1, PTGS2, PDGFA, FGFRL1, TGFB3, POSTN, PAX1, DAB2, FLI1, HEY1, CTGF, COL12A1, HTRA3, ERRFI1, PLD2, MINPP1, ARHGAP24, MYH9, PPDPF, SCEL, FMN1, ARVCF, G6PD, RHCG, GNAQ, NAV2, DLL4, VEGFA, VAMP5, SHOX, PDGFRB, CAMK1, PRDM1, WNT9A, IQCB1, IRX3, RBP4, CLCN2, GCLC, MYL1, KEAP1, TIMP2, ITGB1, TIMP3, PAQR5, FOXQ1, HOXA3, COL6A3, GPSM1, TGM2, CSDE1, LHX6, COL8A1, ZNF423, DNMT3A, COL4A1, LGALS3, MYO1E, NLK, FBN1, ITGA1, COL15A1, RCAN1, DPYSL3, COL5A2, COL5A1, ATP7A, GCM2, LAMA4, NEDD4, ITGA5, ULK2, PTP4A1, JAK2, TCF12, SNTA1, PLEKHA1 48731 system development 8.90E-07 MEF2C, ACVRL1, NRP1, PTGS2, PDGFA, FGFRL1, TGFB3, POSTN, PAX1, FLI1, HEY1, CTGF, COL12A1, HTRA3, ERRFI1, PLD2, MINPP1, ARHGAP24, MYH9, SCEL, FMN1, G6PD, RHCG, GNAQ, NAV2, DLL4, VEGFA, VAMP5, SHOX, PDGFRB, CAMK1, PRDM1, WNT9A, IQCB1, RBP4, CLCN2, MYL1, TIMP2, TIMP3, ITGB1, FOXQ1, HOXA3, COL6A3, GPSM1, TGM2, CSDE1, LHX6, COL8A1, ZNF423, COL4A1, LGALS3, MYO1E, NLK, FBN1, ITGA1, COL15A1, RCAN1, DPYSL3, COL5A2, COL5A1, ATP7A, GCM2, LAMA4, NEDD4, ITGA5, ULK2, JAK2, TCF12, SNTA1, PLEKHA1 48856 anatomical structure development 8.90E-07 MEF2C, ACVRL1, NRP1, PTGS2, PDGFA, FGFRL1, TGFB3, POSTN, PAX1, DAB2, FLI1, HEY1, CTGF, COL12A1, HTRA3, ERRFI1, PLD2, MINPP1, ARHGAP24, MYH9, SCEL, FMN1, G6PD, RHCG, GNAQ, NAV2, DLL4, VEGFA, VAMP5, SHOX, PDGFRB, CAMK1, PRDM1, WNT9A, SLC40A1, IQCB1, RBP4, SHROOM1, CLCN2, GCLC, MYL1, TIMP2, ITGB1, TIMP3, FOXQ1, HOXA3, COL6A3, GPSM1, TGM2, CSDE1, LHX6, COL8A1, ZNF423, COL4A1, LGALS3, MYO1E, NLK, FBN1, ITGA1, COL15A1, RCAN1, DPYSL3, COL5A2, COL5A1, ATP7A, GCM2, LAMA4, NEDD4, ITGA5, ULK2, JAK2, TCF12, SNTA1, PLEKHA1 48513 organ development 2.05E-06 MEF2C, NRP1, ACVRL1, PTGS2, PDGFA, FGFRL1, TGFB3, POSTN, PAX1, FLI1, HEY1, CTGF, HTRA3, ERRFI1, MINPP1, MYH9, ARHGAP24, SCEL, FMN1, G6PD, RHCG, GNAQ, DLL4, VEGFA, VAMP5, PDGFRB, PRDM1, WNT9A, IQCB1, RBP4, CLCN2, MYL1, TIMP3, ITGB1, FOXQ1, HOXA3, GO ID GO category description FDR P-value Genes within GO category COL6A3, TGM2, CSDE1, LHX6, COL8A1, COL4A1, NLK, MYO1E, FBN1, COL15A1, RCAN1, COL5A2, COL5A1, ATP7A, LAMA4, GCM2, ITGA5, JAK2, TCF12, SNTA1, PLEKHA1 1944 vasculature development 1.58E-05 COL4A1, ACVRL1, NRP1, PDGFA, MYO1E, NLK, COL15A1, ARHGAP24, MYH9, COL5A1, ATP7A, LAMA4, HOXA3, ITGA5, CTGF, DLL4, VEGFA, TGM2, COL8A1, ERRFI1 30198 extracellular matrix organization 3.91E-05 ATP7A, COL4A2, LGALS3, CTGF, LUM, COL12A1, POSTN, VWA1, COL5A2, B4GALT7, COL11A1, COL5A1 1568 blood vessel development 4.12E-05 COL4A1, ACVRL1, NRP1, PDGFA, NLK, MYO1E, COL15A1, ARHGAP24, MYH9, COL5A1, ATP7A, LAMA4, HOXA3, ITGA5, CTGF, DLL4, VEGFA, TGM2, COL8A1 48514 blood vessel morphogenesis 5.10E-05 COL4A1, ACVRL1, NRP1, PDGFA, NLK, MYO1E, COL15A1, ARHGAP24, MYH9, ATP7A, HOXA3, ITGA5, CTGF, DLL4, VEGFA, TGM2, COL8A1 1501 skeletal system development 6.98E-05 RBP4, MINPP1, PTGS2, LGALS3, FBN1, FGFRL1, TGFB3, POSTN, COL5A2, PAX1, ATP7A, FMN1, HOXA3, GNAQ, CTGF, COL12A1, PDGFRB, SHOX, WNT9A, PLEKHA1 1525 angiogenesis 7.82E-05 COL4A1, ACVRL1, NRP1, PDGFA, NLK, COL15A1, MYH9, ARHGAP24, HOXA3, CTGF, ITGA5, DLL4, VEGFA, COL8A1 43062 extracellular structure organization 1.43E-04 ATP7A, COL4A2, LGALS3, CTGF, LUM, COL12A1, POSTN, VWA1, COL5A2, B4GALT7, COL11A1, COL5A1, SNTA1 9653 anatomical structure morphogenesis 1.98E-04 RBP4, SHROOM1, NRP1, ACVRL1, GCLC, PDGFA, FGFRL1, TGFB3, PAX1, TIMP3, DAB2, FOXQ1, HOXA3, FLI1, HEY1, CTGF, TGM2, COL8A1, ERRFI1, COL4A1, MYO1E, NLK, ITGA1, COL15A1, ARHGAP24, MYH9, COL5A2, COL5A1, ATP7A, FMN1, GNAQ, ITGA5, ULK2, DLL4, VEGFA, PDGFRB, JAK2, WNT9A, SLC40A1, PLEKHA1 48008 platelet-derived growth factor receptor 3.87E-04 PDGFA, MYO1E, VEGFA, PDGFRB, JAK2, PLEKHA1 signaling pathway 30199 collagen fibril organization 1.25E-03 ATP7A, LUM, COL12A1, COL5A2, COL11A1, COL5A1 50730 regulation of peptidyl-tyrosine phosphorylation 3.53E-03 ITGA5, PDGFA, VEGFA, PDGFRB, JAK2, ERRFI1, THBS4 40012 regulation of locomotion 4.08E-03 PLD2, ACVRL1, PTGS2, PDGFA, F2RL1, FURIN, LAMA4, CXCR4, PTP4A1, DLL4, VEGFA, PDGFRB, JAK2, THBS4 30154 cell differentiation 4.08E-03 MEF2C, FRK, RBP4, CLCN2, NRP1, TIMP2, PAX1, ITGB1, PAQR5, DAB2, NDRG3, CTGF, GPSM1, LHX6, HTRA3, ZNF423, PLD2, ALDH6A1, COL4A1, LGALS3, MYO1E, ITGA1, COL15A1, RCAN1, ARHGAP24, MYH9, PPDPF, SCEL, ATP7A, GCM2, LAMA4, G6PD, RHCG, GNAQ, NEDD4, ULK2, DLL4, VEGFA, VAMP5, CAMK1, JAK2, PRDM1, WNT9A, SNTA1 48869 cellular developmental process 4.08E-03 MEF2C, FRK, RBP4, SHROOM1, CLCN2, NRP1, TIMP2, PAX1, ITGB1, PAQR5, DAB2, NDRG3, CTGF, GPSM1, LHX6, HTRA3, ZNF423, PLD2, ALDH6A1, COL4A1, LGALS3, MYO1E, ITGA1, COL15A1, RCAN1, ARHGAP24, MYH9, PPDPF, SCEL, ATP7A, GCM2, LAMA4, G6PD, RHCG, GNAQ, NEDD4, ULK2, DLL4, VEGFA, VAMP5, CAMK1, JAK2, PRDM1, WNT9A, SNTA1 GO ID GO category description FDR P-value Genes within GO category 35313 wound healing, spreading of epidermal cells 4.08E-03 ACVRL1, ITGA5, COL5A1 44319 wound healing, spreading of epithelial cells 4.08E-03 ACVRL1, ITGA5, COL5A1 7155 cell adhesion 4.08E-03 MTSS1, NRP1, PCDH20, FERMT2, PPFIA1, ITGA1, COL15A1, CD99, LMO7, POSTN, MYH9, CD151, ITGB1, COL5A1, ARVCF, ANXA9, ITGA5, CTGF, COL6A3, COL12A1, COL8A1, COL11A1, THBS4 22610 biological adhesion 4.08E-03 MTSS1, NRP1, PCDH20, FERMT2, PPFIA1, ITGA1, COL15A1, CD99, LMO7, POSTN, MYH9, CD151, ITGB1, COL5A1, ARVCF, ANXA9, ITGA5, CTGF, COL6A3, COL12A1, COL8A1, COL11A1, THBS4 51270 regulation of cellular component movement 4.29E-03 PLD2, LAMA4, NRP1, ACVRL1, PTGS2, PDGFA, DLL4, PTP4A1, F2RL1, VEGFA, PDGFRB, JAK2, FURIN, THBS4 30335 positive regulation of cell migration 4.29E-03 PLD2, PTGS2, PDGFA, PTP4A1, F2RL1, VEGFA, PDGFRB, JAK2, FURIN, THBS4 48646 anatomical structure formation involved in 4.41E-03 RBP4, COL4A1, ACVRL1, NRP1, PDGFA, NLK, COL15A1, ARHGAP24, MYH9, PAX1, ATP7A, HOXA3, morphogenesis ITGA5, CTGF, DLL4, VEGFA, TGM2, COL8A1 3013 circulatory system process 4.41E-03 GCLC, ACVRL1, FLI1, PTGS2, DLL4, MYL1, VEGFA, ITGA1, RCAN1, ATP1A1, GCGR 8015 blood circulation 4.41E-03 GCLC, ACVRL1, FLI1, PTGS2, DLL4, MYL1, VEGFA, ITGA1, RCAN1, ATP1A1, GCGR 30334 regulation of cell migration 4.82E-03 PLD2, LAMA4, ACVRL1, PTGS2, PDGFA, DLL4, PTP4A1, F2RL1, VEGFA, PDGFRB, JAK2, FURIN, THBS4 3008 system process 4.89E-03 IQCB1, SEPT5, RBP4, ACVRL1, GCLC, PTGS2, LUM, MYL1, NTAN1, GCGR, TIMP3, MYOT, HCRTR2, DAB2, FLI1, LMOD1, COL11A1, ITGA1, RCAN1, ATP1A1, SLC17A7, ITGA5, OTOF, DLL4, VEGFA, MYLK, SNTA1, ABCC6, CACNA1B 40017 positive regulation of locomotion 5.44E-03 PLD2, PTGS2, PDGFA, PTP4A1, F2RL1, VEGFA, PDGFRB, JAK2, FURIN, THBS4 51272 positive regulation of cellular component 6.25E-03 PLD2, PTGS2, PDGFA, PTP4A1, F2RL1, VEGFA, PDGFRB, JAK2, FURIN, THBS4 movement 21884 forebrain neuron development 6.68E-03 ATP7A, GNAQ, LHX6 48286 lung alveolus development 6.68E-03 ATP7A, PDGFA, VEGFA, TGFB3, ERRFI1 60541 respiratory system development 1.16E-02 ATP7A, RBP4, CLCN2, PDGFA, CTGF, VEGFA, FGFRL1, TGFB3, ERRFI1 9888 tissue development 1.16E-02 RBP4, MINPP1, COL4A1, NRP1, PTGS2, PDGFA, RCAN1, POSTN, COL5A2, TIMP3, COL5A1, SCEL, ATP7A, FOXQ1, HOXA3, RHCG, CTGF, VEGFA, TGM2, VAMP5, PDGFRB, JAK2, ERRFI1, SNTA1 60017 parathyroid gland development 1.16E-02 GCM2, HOXA3, PAX1 30001 metal ion transport 1.16E-02 TRPM4, SLC39A14, CACNA2D1, KCTD1, ATP1A1, ITPR2, SLC17A7, ATP7A, CTGF, MCOLN1, SLC4A4, SLC39A3, SLC40A1, SLC30A9, CACNA1B 6812 cation transport 1.31E-02 TRPM4, SLC39A14, CACNA2D1, KCTD1, ATP1A1, RHAG, ITPR2, SLC17A7, ATP7A, RHCG, CTGF, GO ID GO category description FDR P-value Genes within GO category MCOLN1, SLC4A4, SLC39A3, SLC40A1, SLC30A9, CACNA1B 43588 skin development 1.59E-02 ATP7A, PDGFA, COL5A2, ERRFI1, COL5A1 8544 epidermis development 1.93E-02 ATP7A, FOXQ1, PTGS2, PDGFA, CTGF, COL5A2, ERRFI1, COL5A1, SCEL 1974 blood vessel remodeling 2.36E-02 ATP7A, HOXA3, VEGFA, TGM2 30324 lung development 2.36E-02 ATP7A, RBP4, CLCN2, PDGFA, CTGF, VEGFA, TGFB3, ERRFI1 9887 organ morphogenesis 2.44E-02 RBP4, NRP1, PDGFA, FGFRL1, TGFB3, COL5A2, PAX1, COL5A1, ATP7A, FMN1, FOXQ1, HOXA3, FLI1, HEY1, CTGF, VEGFA, TGM2, PDGFRB,