# of transcr ipts FDR q- value transcripts PGF,CTNNB1,AKT2,FARP2,VEGFB,PDGFRA,DRD 2,CSF1,CDH1,ITGB1,SRC,KRAS,RASGRP3,MAP2. Pathway

Transcription

1 Supplementary Table 9. Pathways and biological processes associated with transcripts specific to SEB in both the pre- and post- RASP leukocytes (transcripts included in the Reactome Function Interaction networks). Note: Single capitalized letters in braces indicate the sources of the enrichment: K from KEGG; R from Reactome; N from NCI PID; C from CellMap Pathways Pathway Rap1 signaling pathway(k) Focal adhesion(k) Bacterial invasion of epithelial cells(k) Pathways in cancer(k) # of transcr ipts FDR q- value transcripts PGF,CTNNB1,AKT2,FARP2,VEGFB,PDGFRA,DRD 2,CSF1,CDH1,ITGB1,SRC,KRAS,RASGRP3,MAP2 14 <1.000e- 03 K2 PGF,CTNNB1,AKT2,VEGFB,PDGFRA,IBSP,CAV2, 13 <5.000e- 04 COL2A1,ITGB1,SRC,DOCK1,ITGB8,BCL2 CTNNB1,RHOG,CAV2,CDH1,ITGB1,SRC,DOCK1, 8 <3.333e- 04 ARPC2 PGF,CTNNB1,MAX,AKT2,PLD1,SKP2,VEGFB,PD 14 <2.500e- 04 GFRA,TRAF2,CDH1,ITGB1,KRAS,BCL2,MAP2K2 PGF,PPP2R5D,AKT2,VEGFB,PDGFRA,IBSP,CSF1, COL2A1,ITGB1,KRAS,ITGB8,BCL2,MAP2K2,YW 14 <2.000e- 04 HAH PI3K- Akt signaling pathway(k) Nectin adhesion pathway(n) E- 04 CTNNB1,FARP2,CDH1,SRC,PVRL1 Syndecan- 2- mediated signaling events(n) E- 04 SDC2,CSF2,CAV2,ITGB1,SRC CXCR3- mediated signaling events(n) E- 04 CXCL10,CXCL9,SRC,KRAS,MAP2K2 L1CAM interactions(r) 7 KCNQ2,NCAM1,SCN1B,ITGB1,SRC,MAP2K2,SP 7.78E- 04 TBN1 TNFSF13,CXCL10,TNFRSF14,VEGFB,PDGFRA,CS F2,CSF1,CXCL9,TNFRSF8,CCL8,TNFSF4 Cytokine- cytokine receptor interaction(k) E- 04 E- cadherin signaling in keratinocytes(n) E- 03 CTNNB1,AKT2,CDH1,SRC SDC2,NCAM1,CDH1,CDH2,CDH3,ITGB1,PVRL1, ITGB8 Cell adhesion molecules (CAMs)(K) E- 03 Adherens junction(k) E- 03 FER,CTNNB1,FARP2,CDH1,SRC,PVRL1 FGF signaling pathway(n) E- 03 SDC2,NCAM1,CDH1,CDH2,SRC Alpha9 beta1 integrin signaling events(n) E- 03 ADAM8,CSF2,ITGB1,SRC Posttranslational regulation of adherens junction stability and dissassembly(n) E- 03 CTNNB1,CDH1,CDH2,SRC,HGS Signaling events mediated by Hepatocyte Growth Factor Receptor (c- Met)(N) E- 03 CTNNB1,AKT2,CDH1,SRC,MAP2K2,HGS Cell junction organization(r) E- 03 CTNNB1,CDH1,CDH2,CDH3,ITGB1,PVRL1 Signaling by EGFR(R) 8 PRKAR2A,AKT2,PDGFRA,SRC,KRAS,MAP2K2,PR 2.50E- 03 KAR1B,HGS Ras signaling pathway(k) 9 PGF,AKT2,PLD1,VEGFB,PDGFRA,CSF1,KRAS,RA 3.00E- 03 SGRP3,MAP2K2 Shigellosis(K) E- 03 RHOG,ITGB1,SRC,DOCK1,ARPC2 Alpha4 beta1 integrin signaling events(n) E- 03 ITGB1,SRC,DOCK1,PRKAR1B Arf6 trafficking events(n) E- 03 CTNNB1,PLD1,SPAG9,CDH1

2 NCAM signaling for neurite out- growth(r) E- 03 NCAM1,SRC,KRAS,MAP2K2,SPTBN1 ErbB1 downstream signaling(n) E- 03 PLD1,SRC,KRAS,ARPC2,MAP2K2,YWHAH mtor signaling pathway(n) E- 03 PLD1,EIF4A1,KRAS,MAP2K2,YWHAH Trk receptor signaling mediated by PI3K and PLC- gamma(n) E- 03 SRC,KRAS,TRPC3,YWHAH CDC42 signaling events(n) E- 03 CTNNB1,PLD1,CDH1,SRC,ARPC2 Signaling by FGFR(R) 7 PRKAR2A,AKT2,PDGFRA,SRC,KRAS,MAP2K2,PR 5.15E- 03 KAR1B Signaling by ERBB2(R) 7 PRKAR2A,AKT2,PDGFRA,SRC,KRAS,MAP2K2,PR 5.31E- 03 KAR1B Alzheimer disease- presenilin pathway(p) E- 03 CTNNB1,APP,CDH1,CDH3,PVRL1,LRP1 Integrin signalling pathway(p) 7 COL2A1,ITGB1,SRC,KRAS,ARPC2,ITGB8,MAP2K 5.70E Urokinase- type plasminogen activator (upa) and upar- mediated signaling(n) E- 03 ITGB1,SRC,DOCK1,LRP1 Muscarinic acetylcholine receptor 2 and 4 signaling pathway(p) E- 03 PRKAR2A,PRKAR1B Regulation of actin cytoskeleton(k) 8 PDGFRA,ITGB1,SRC,KRAS,DOCK1,ARPC2,ITGB8 6.55E- 03,MAP2K2 PDGFR- beta signaling pathway(n) E- 03 SRC,KRAS,ARPC2,MAP2K2,LRP1,YWHAH regulation of bad phosphorylation(b) E- 03 PRKAR2A,BCL2,YWHAH Signalling by NGF(R) 9 PPP2R5D,PRKAR2A,NET1,AKT2,PDGFRA,SRC,K 7.84E- 03 RAS,MAP2K2,PRKAR1B Proteoglycans in cancer(k) 8 SDC2,CTNNB1,AKT2,CAV2,ITGB1,SRC,KRAS,MA 7.96E- 03 P2K2 regulation of ck1/cdk5 by type 1 glutamate receptors(b) E- 03 PRKAR2A,CDK5R1,DRD2 Signaling by PDGF(R) 7 PRKAR2A,AKT2,PDGFRA,SRC,KRAS,MAP2K2,PR 8.72E- 03 KAR1B Apoptosis(K) E- 03 PRKAR2A,AKT2,TRAF2,BCL2,PRKAR1B ECM- receptor interaction(k) E- 03 IBSP,COL2A1,ITGB1,ITGB8,GP1BA Gap junction(k) E- 02 PDGFRA,DRD2,SRC,KRAS,MAP2K2 Signaling events mediated by PTP1B(N) E- 02 FER,CSF1,CDH2,SRC Signaling by SCF- KIT(R) E- 02 FER,AKT2,PDGFRA,SRC,KRAS,MAP2K2 FGF signaling pathway(p) E- 02 PPP2R5D,AKT2,KRAS,MAP2K2,YWHAH IL2- mediated signaling events(n) E- 02 DOK2,KRAS,BCL2,MAP2K2 Endothelin signaling pathway(p) E- 02 PRKAR2A,AKT2,MAP2K2,PRKAR1B Pathogenic Escherichia coli infection(k) E- 02 CTNNB1,CDH1,ITGB1,ARPC2 Hepatitis B(K) E- 02 AKT2,SRC,KRAS,BCL2,MAP2K2,IKBKE VEGF signaling pathway(k) E- 02 AKT2,SRC,KRAS,MAP2K2 Myogenesis(R) E- 02 CTNNB1,SPAG9,CDH2 Extracellular matrix organization(r) 8 SDC2,ADAM8,NCAM1,IBSP,COL2A1,CDH1,ITG 1.68E- 02 B1,ITGB8 Alpha- synuclein signaling(n) E- 02 PPP2R5D,PLD1,SRC Toll- like receptor signaling pathway(k) E- 02 CXCL10,AKT2,CXCL9,MAP2K2,IKBKE Wnt signaling pathway(p) 8 PPP2R5D,CTNNB1,SMARCA1,EP400,CDH1,CDH 1.83E- 02 2,CDH3,CDH17 Semaphorin interactions(r) E- 02 RHOG,FARP2,CDK5R1,ITGB1 Netrin- mediated signaling events(n) E- 02 SRC,DOCK1,MAP2K2

3 TNF signaling pathway(k) E- 02 CXCL10,AKT2,TRAF2,CSF2,CSF1 Degradation of beta- catenin by the destruction complex(r) E- 02 PPP2R5D,CTNNB1,PSMB7,PSMB1 N- cadherin signaling events(n) E- 02 FER,CTNNB1,CDH2 Fc epsilon RI signaling pathway(k) E- 02 AKT2,CSF2,KRAS,MAP2K2 VEGF and VEGFR signaling network(n) E- 02 PGF,VEGFB Hedgehog signaling pathway(p) E- 02 PRKAR2A,PRKAR1B GP1b- IX- V activation signalling(r) E- 02 SRC,GP1BA RAF/MAP kinase cascade(r) E- 02 KRAS,MAP2K2 Signaling by VEGF(R) E- 02 PGF,VEGFB overview of telomerase protein component gene htert transcriptional regulation(b) E- 02 MAX,MXD1 Class I PI3K signaling events mediated by Akt(N) E- 02 AKT2,SRC,YWHAH a6b1 and a6b4 Integrin signaling(n) E- 02 CDH1,ITGB1,YWHAH Signaling events mediated by TCPTP(N) E- 02 CSF1,ITGB1,SRC Internalization of ErbB1(N) E- 02 SRC,KRAS,HGS B cell receptor signaling pathway(k) E- 02 AKT2,KRAS,RASGRP3,MAP2K2 Prolactin signaling pathway(k) E- 02 AKT2,SRC,KRAS,MAP2K2 PRKAR2A,AKT2,PDGFRA,KRAS,MAP2K2,PRKAR 1B DAP12 interactions(r) E- 02 E- cadherin signaling in the nascent adherens junction(n) E- 02 CTNNB1,CDH1,SRC Arrhythmogenic right ventricular cardiomyopathy (ARVC)(K) E- 02 CTNNB1,CDH2,ITGB1,ITGB8 Costimulation by the CD28 family(r) E- 02 PPP2R5D,AKT2,TNFRSF14,SRC Metabotropic glutamate receptor group II pathway(p) E- 02 PRKAR2A,PRKAR1B GMCSF- mediated signaling events(n) E- 02 CSF2,KRAS,MAP2K2 ErbB2/ErbB3 signaling events(n) E- 02 SRC,KRAS,MAP2K2 Signaling by Rho GTPases(R) E- 02 DLC1,RHOG,NET1,MYO9B,INPP5B Intrinsic Pathway for Apoptosis(R) E- 02 AKT2,BCL2,YWHAH Regulation of nuclear beta catenin signaling and target gene transcription(n) E- 02 CTNNB1,CDH1,CHD8,YWHAH role of mitochondria in apoptotic signaling(b) E- 02 BCL2,BIK transcription regulation by methyltransferase of carm1(b) E- 02 PRKAR2A,BCL2 Platelet Adhesion to exposed collagen(r) E- 02 ITGB1,GP1BA EGF receptor signaling pathway(p) E- 02 AKT2,KRAS,MAP2K2,YWHAH Netrin- 1 signaling(r) E- 02 SRC,DOCK1,TRPC3 Interleukin- 2 signaling(r) E- 02 CSF2,KRAS,MAP2K2 Chemokine signaling pathway(k) E- 02 CXCL10,AKT2,CXCL9,CCL8,SRC,KRAS ErbB signaling pathway(k) E- 02 AKT2,SRC,KRAS,MAP2K2 MAX,AKT2,PDGFRA,TRAF2,KRAS,RASGRP3,MA P2K2 MAPK signaling pathway(k) E- 02 Regulation of RhoA activity(n) E- 02 DLC1,NET1,MYO9B Insulin signaling pathway(k) E- 02 PRKAR2A,AKT2,KRAS,MAP2K2,PRKAR1B

4 Epstein- Barr virus infection(k) E- 02 AKT2,SKP2,TRAF2,POLR2C,BCL2,YWHAH Ceramide signaling pathway(n) E- 02 TRAF2,BCL2,MAP2K2 FoxO family signaling(n) E- 02 CTNNB1,SKP2,YWHAH role of nicotinic acetylcholine receptors in the regulation of apoptosis(b) E- 02 SRC,YWHAH GnRH signaling pathway(k) E- 02 PLD1,SRC,KRAS,MAP2K2 Cell surface interactions at the vascular wall(r) E- 02 DOK2,ITGB1,SRC,KRAS SHP2 signaling(n) E- 02 SDC2,KRAS,MAP2K2 Caspase cascade in apoptosis(n) E- 02 APP,TRAF2,BCL2 Signaling events mediated by Stem cell factor receptor (c- Kit)(N) E- 02 FER,BCL2,MAP2K2 Cadherin signaling pathway(p) E- 02 CTNNB1,CDH1,CDH3,CDH17 Estrogen signaling pathway(k) E- 02 AKT2,SRC,KRAS,MAP2K2 RAC1 signaling pathway(n) E- 02 CTNNB1,CDH1,ARPC2 Signaling events mediated by HDAC Class I(N) E- 02 MAX,MXD1,CHD4 T cell receptor signaling pathway(k) E- 02 AKT2,CSF2,KRAS,MAP2K2 Biological Processes Processes # of transcr ipts FDR q- value transcripts axon guidance 12 KCNQ2,RHOG,NCAM1,CDK5R1,SCN1B,COL2A1 3.00E- 03,SRC,KRAS,DOCK1,TRPC3,MAP2K2,SPTBN1 Ras protein signal transduction E- 03 PLD1,DOK2,SRC,KRAS,RASGRP3,MAP2K2 small GTPase mediated signal transduction 11 DLC1,RHOG,NET1,PLD1,GEM,MYO9B,KRAS,DO 7.67E- 03 CK1,RASGRP3,INPP5B,MAP2K2 tumor necrosis factor- mediated signaling pathway E- 01 TNFRSF14,TRAF2,TNFRSF8 cell adhesion 10 APP,NCAM1,IBSP,SCN1B,CDH3,SRC,PVRL1,ITG 1.43E- 01 B8,GP1BA,CDH17 positive regulation of podosome assembly E- 01 CSF2,SRC regulation of synaptic transmission, GABAergic E- 01 DRD2,KRAS neuron apoptotic process E- 01 MAX,APP,BCL2 heart morphogenesis E- 01 DLC1,COL2A1,TBX1 axonogenesis E- 01 APP,TOP2B,DRD2,BCL2 ATP- dependent chromatin remodeling E- 01 SMARCA1,CHD8 regulation of actin cytoskeleton organization E- 01 DLC1,CDK5R1,LRP1 epidermal growth factor receptor signaling pathway E- 01 PRKAR2A,PDGFRA,SRC,KRAS,MAP2K2,HGS response to iron ion E- 01 DRD2,BCL2 chemotaxis E- 01 FER,CXCL10,PLD1,CXCL9,CCL8 cell- cell adhesion E- 01 CTNNB1,ADAM8,PVRL1,BCL2 immune response E- 01 TNFSF13,CXCL10,TNFRSF14,GEM,CSF2,CXCL9, CCL8,PVRL1,TNFSF4,IKBKE

5 visual learning E- 01 APP,DRD2,KRAS positive regulation of protein targeting to membrane E- 01 AKT2,CDK5R1 negative regulation of intrinsic apoptotic signaling pathway E- 01 SRC,BCL2 positive regulation of gene expression E- 01 CTCF,CSF2,LRRC32,CSF1,KRAS platelet activation E- 01 APP,RHOG,VEGFB,SRC,GP1BA,TRPC3 nerve growth factor receptor signaling pathway 7 PPP2R5D,PRKAR2A,NET1,PDGFRA,SRC,KRAS,M 1.32E- 01 AP2K2 regulation of small GTPase mediated signal transduction E- 01 DLC1,RHOG,NET1,MYO9B,INPP5B virus- host interaction 8 TNFRSF14,EIF4A1,PDGFRA,SRC,SF3B2,PVRL1,P 1.34E- 01 SMB1,FDPS striated muscle cell differentiation E- 01 SPAG9,KRAS aorta morphogenesis E- 01 TBX1,LRP1 PPP2R5D,PRKAR2A,APP,PDGFRA,TRAF2,LRRC3 2,CSF1,SRC,KRAS,DOCK1,BCL2,MAP2K2,IKBKE innate immune response E- 01 homophilic cell adhesion E- 01 CDH1,CDH2,CDH3,PVRL1,CDH17 SDC2,APP,NCAM1,PDGFRA,IBSP,COL2A1,ITGB 8 extracellular matrix organization E- 01 regulation of sodium ion transport E- 01 DRD2,YWHAH negative regulation of anoikis E- 01 SRC,BCL2 positive regulation of ERK1 and ERK2 cascade E- 01 VEGFB,PDGFRA,DRD2,SRC positive regulation of macrophage derived foam cell differentiation E- 01 CSF2,CSF1 fibroblast growth factor receptor signaling pathway E- 01 PRKAR2A,PDGFRA,SRC,KRAS,MAP2K2 myeloid dendritic cell differentiation E- 01 UBD,CSF2 negative regulation of neuron apoptotic process E- 01 ADAM8,VEGFB,KRAS,BCL2 blood coagulation E- 01 PRKAR2A,APP,RHOG,VEGFB,SRC,KRAS,DOCK1, GP1BA,TRPC3

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