T cell receptor signaling pathway all sink node genes ● ● ● ● ● ● ●● ● ● ● ● ● ● ● ● ● ●● ● ● ●●● ● ● ● ● ● ● ● ● ● ● ● ● ● ● ●● ● ●● ● ● ●● ● ● ● ●●● ●● ● ● ● ● ● ●●● ● ●●● ● ● ● ● ● ●● ● ● ● ● ●● ● ● ● ● ● ●● ● ● ● ● ●● ● ● ●●● ● ● ● ● ● ● ● ● ● ● ● ●● ● ● ●● ● ● ● ● ● ● ● ●● ● ● ● ● ● ● ● ● ● ● ●● ● ● ● ● ● ●● ● ● ● ● ●● ● ● ● ● ● ● ● ● ●● ●● ● ● ● ● ● ● ● ●● ● ● ● ● ● ● ● ● ● ● ● ● ●● ● ● ●● ●●● ● ● ● ● ● ● ● ● ●● ● ● ● ●● ● ● ●● ● ● ●● ● ● ● ● ● ● ● ●●●●●● ●●● ● ● ● ● ● ● maximum = 4 maximum = 3 2 1 s>

10 0

0 10 log −1 −2

group 1 group 2 group 3 group 4 group 5 group 6 group 7 group 8 T_cell_receptor_signaling_pathway genes with data

PDCD1

CTLA4 PTPN6

PTPRC

CD4 LCK CBLB

CD3E FYN DLG1 CD3G

CD247 ZAP70 MAPK14 CD247

CD3D

CD3E LCP2 NCK1 PAK4

GRAP2

LAT

VAV3 RHOA

ITK GRB2

PLCG1 PPP3CA NFATC1 IL2

IL4

IL5

SOS1 RASGRP1 HRAS RAF1 MAP2K1 MAPK1 FOS IL10

IFNG

CSF2

TNF

CDK4 MAP3K7 MAP2K7 MAPK9

NFKB1 PRKCQ CARD11 CD40LG BCL10 IKBKB NFKBIA MALT1 IKBKG

CHUK ICOS PIK3CA AKT3 MAP3K8 MAP3K14 CD28

PDPK1 GRB2 GSK3B T_cell_receptor_signaling_pathway sink nodes

PDCD1

CTLA4 PTPN6

PTPRC

CD4 LCK CBLB

CD3E FYN DLG1 CD3G

CD247 ZAP70 MAPK14 CD247

CD3D

CD3E LCP2 NCK1 PAK4

GRAP2

LAT

VAV3 RHOA

ITK GRB2

PLCG1 PPP3CA NFATC1 IL2

IL4

IL5

SOS1 RASGRP1 HRAS RAF1 MAP2K1 MAPK1 FOS IL10

IFNG

CSF2

TNF

CDK4 MAP3K7 MAP2K7 MAPK9

NFKB1 PRKCQ CARD11 CD40LG BCL10 IKBKB NFKBIA MALT1 IKBKG

CHUK ICOS PIK3CA AKT3 MAP3K8 MAP3K14 CD28

PDPK1 GRB2 GSK3B T_cell_receptor_signaling_pathway group 1

PDCD1

CTLA4 PTPN6

PTPRC

CD4 LCK CBLB

CD3E FYN DLG1 CD3G

CD247 ZAP70 MAPK14 CD247

CD3D

CD3E LCP2 NCK1 PAK4

GRAP2

LAT

VAV3 RHOA

ITK GRB2

PLCG1 PPP3CA NFATC1 IL2

IL4

IL5

SOS1 RASGRP1 HRAS RAF1 MAP2K1 MAPK1 FOS IL10

IFNG

CSF2

TNF

CDK4 MAP3K7 MAP2K7 MAPK9

NFKB1 PRKCQ CARD11 CD40LG BCL10 IKBKB NFKBIA MALT1 IKBKG

CHUK ICOS PIK3CA AKT3 MAP3K8 MAP3K14 CD28

PDPK1 GRB2 GSK3B T_cell_receptor_signaling_pathway group 2

PDCD1

CTLA4 PTPN6

PTPRC

CD4 LCK CBLB

CD3E FYN DLG1 CD3G

CD247 ZAP70 MAPK14 CD247

CD3D

CD3E LCP2 NCK1 PAK4

GRAP2

LAT

VAV3 RHOA

ITK GRB2

PLCG1 PPP3CA NFATC1 IL2

IL4

IL5

SOS1 RASGRP1 HRAS RAF1 MAP2K1 MAPK1 FOS IL10

IFNG

CSF2

TNF

CDK4 MAP3K7 MAP2K7 MAPK9

NFKB1 PRKCQ CARD11 CD40LG BCL10 IKBKB NFKBIA MALT1 IKBKG

CHUK ICOS PIK3CA AKT3 MAP3K8 MAP3K14 CD28

PDPK1 GRB2 GSK3B T_cell_receptor_signaling_pathway group 3

PDCD1

CTLA4 PTPN6

PTPRC

CD4 LCK CBLB

CD3E FYN DLG1 CD3G

CD247 ZAP70 MAPK14 CD247

CD3D

CD3E LCP2 NCK1 PAK4

GRAP2

LAT

VAV3 RHOA

ITK GRB2

PLCG1 PPP3CA NFATC1 IL2

IL4

IL5

SOS1 RASGRP1 HRAS RAF1 MAP2K1 MAPK1 FOS IL10

IFNG

CSF2

TNF

CDK4 MAP3K7 MAP2K7 MAPK9

NFKB1 PRKCQ CARD11 CD40LG BCL10 IKBKB NFKBIA MALT1 IKBKG

CHUK ICOS PIK3CA AKT3 MAP3K8 MAP3K14 CD28

PDPK1 GRB2 GSK3B T_cell_receptor_signaling_pathway group 4

PDCD1

CTLA4 PTPN6

PTPRC

CD4 LCK CBLB

CD3E FYN DLG1 CD3G

CD247 ZAP70 MAPK14 CD247

CD3D

CD3E LCP2 NCK1 PAK4

GRAP2

LAT

VAV3 RHOA

ITK GRB2

PLCG1 PPP3CA NFATC1 IL2

IL4

IL5

SOS1 RASGRP1 HRAS RAF1 MAP2K1 MAPK1 FOS IL10

IFNG

CSF2

TNF

CDK4 MAP3K7 MAP2K7 MAPK9

NFKB1 PRKCQ CARD11 CD40LG BCL10 IKBKB NFKBIA MALT1 IKBKG

CHUK ICOS PIK3CA AKT3 MAP3K8 MAP3K14 CD28

PDPK1 GRB2 GSK3B T_cell_receptor_signaling_pathway group 5

PDCD1

CTLA4 PTPN6

PTPRC

CD4 LCK CBLB

CD3E FYN DLG1 CD3G

CD247 ZAP70 MAPK14 CD247

CD3D

CD3E LCP2 NCK1 PAK4

GRAP2

LAT

VAV3 RHOA

ITK GRB2

PLCG1 PPP3CA NFATC1 IL2

IL4

IL5

SOS1 RASGRP1 HRAS RAF1 MAP2K1 MAPK1 FOS IL10

IFNG

CSF2

TNF

CDK4 MAP3K7 MAP2K7 MAPK9

NFKB1 PRKCQ CARD11 CD40LG BCL10 IKBKB NFKBIA MALT1 IKBKG

CHUK ICOS PIK3CA AKT3 MAP3K8 MAP3K14 CD28

PDPK1 GRB2 GSK3B T_cell_receptor_signaling_pathway group 6

PDCD1

CTLA4 PTPN6

PTPRC

CD4 LCK CBLB

CD3E FYN DLG1 CD3G

CD247 ZAP70 MAPK14 CD247

CD3D

CD3E LCP2 NCK1 PAK4

GRAP2

LAT

VAV3 RHOA

ITK GRB2

PLCG1 PPP3CA NFATC1 IL2

IL4

IL5

SOS1 RASGRP1 HRAS RAF1 MAP2K1 MAPK1 FOS IL10

IFNG

CSF2

TNF

CDK4 MAP3K7 MAP2K7 MAPK9

NFKB1 PRKCQ CARD11 CD40LG BCL10 IKBKB NFKBIA MALT1 IKBKG

CHUK ICOS PIK3CA AKT3 MAP3K8 MAP3K14 CD28

PDPK1 GRB2 GSK3B T_cell_receptor_signaling_pathway group 7

PDCD1

CTLA4 PTPN6

PTPRC

CD4 LCK CBLB

CD3E FYN DLG1 CD3G

CD247 ZAP70 MAPK14 CD247

CD3D

CD3E LCP2 NCK1 PAK4

GRAP2

LAT

VAV3 RHOA

ITK GRB2

PLCG1 PPP3CA NFATC1 IL2

IL4

IL5

SOS1 RASGRP1 HRAS RAF1 MAP2K1 MAPK1 FOS IL10

IFNG

CSF2

TNF

CDK4 MAP3K7 MAP2K7 MAPK9

NFKB1 PRKCQ CARD11 CD40LG BCL10 IKBKB NFKBIA MALT1 IKBKG

CHUK ICOS PIK3CA AKT3 MAP3K8 MAP3K14 CD28

PDPK1 GRB2 GSK3B T_cell_receptor_signaling_pathway group 8

PDCD1

CTLA4 PTPN6

PTPRC

CD4 LCK CBLB

CD3E FYN DLG1 CD3G

CD247 ZAP70 MAPK14 CD247

CD3D

CD3E LCP2 NCK1 PAK4

GRAP2

LAT

VAV3 RHOA

ITK GRB2

PLCG1 PPP3CA NFATC1 IL2

IL4

IL5

SOS1 RASGRP1 HRAS RAF1 MAP2K1 MAPK1 FOS IL10

IFNG

CSF2

TNF

CDK4 MAP3K7 MAP2K7 MAPK9

NFKB1 PRKCQ CARD11 CD40LG BCL10 IKBKB NFKBIA MALT1 IKBKG

CHUK ICOS PIK3CA AKT3 MAP3K8 MAP3K14 CD28

PDPK1 GRB2 GSK3B