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Inkascore.Org Phosphoproteomics Data Analysis Version 0.2.1 Running PRPF4B PRPF4B RET MAP2K1 CDK3 MAPK1 SRC ABL1 CDK2 PTK2 WEE1 LYN CDK1 MAPK3 JAK2 TTK MAPK1 DYRK1B MAP2K1 EGFR PTK2 DYRK1A PKMYT1 ERBB2 MAPK3 MAPK14 ERBB2 FGR TNK2 YES1 BMX KDR DYRK1B SRC MET MAP2K2 DYRK1A FYN PTK2 YES1 MAPK14 MAPK9 FGR INSR YES1 LCK MAPK3 MAP2K3 FYN INSR MAP2K2 MAPK3 PEAK1 IGF1R ABL1 MAP2K6 SRC HIPK2 MAP2K4 FYN SYK HIPK1 MAP2K6 KIT MAPK9 GSK3B MAP3K6 ITK LCK SKMel28.Replicate.1 GSK3A SKMel28.Replicate.1 MAP3K5 SKMel28.Replicate.1 SRMS SKMel28.Replicate.1 AXL Kinome DYRK4 ActLoop CDK5 PSP MET NWK CDK16 DYRK2 ALK MAP2K4 0 10 20 30 40 50 0 10 20 30 40 50 0 20 40 60 80 100 0 10 20 30 40 50 60 70 Not in PSP/NWK INKA SKMel28.Replicate.1 PEAK1 1 MAPK3 ● 36 AXL SRC ● DYRK4 PTK2 ● CDK17 0.9 33 HIPK3 0.8 29 0.7 25 0.6 22 Score 0.5 18 YES1 ● JAK2 ● FYN ● Relative Score Relative 0.4 15 ● INSR ● MAPK14 LYN ● 0.3 11 MAPK1 ● LCK ●IGF1R ● 0.2 ● HIPK2 FGR ● 7 CDK1 CDK5 ● GSK3A ● GSK3B TYK2 ● 0.1 TNK2 ● EPHA2 ● FER ● 4 SYK ● ● HCK ● ALPK3 MAPK10 ● EPHA3 ABL2 ● AKT1 0 2 4 6 Kinase−CentricAKT2 ● AKT3 Equal Substrate−CentricABL1 ● ADRBK1 EvidenceARAF Only Contribution EvidenceALK Only Kinase−Centric Counts InKA Score SKMel28.Replicate.1 MAPK3 SRC PTK2 YES1 JAK2 FYN INSR MAPK14 LYN MAPK1 LCK IGF1R FGR CDK1 CDK5 GSK3A GSK3B HIPK2 TYK2 EPHA2 0 5 10 15 20 25 30 35 SKMel28.Replicate.1 FYN LCK CAV1 TYK2 IGF1R ITK GSK3A TEC YES1 STAT3 GSK3B PEAK1 CDK2 INSR VCL JAK2 MAP2K4 MAP2K1 PKMYT1 LYN TTK MAPK1 PTPRA MAP3K5 MAP3K6 MAPK3 WEE1 PRKACA MPZL1 MAPK14 MAP2K6 CDK1 RET HIPK2 MAP2K2 SRC PDGFRB PXN PDGFRA ABL1 MAP2K3 MET BMX EGFR FGR ERBB2 KDR PTK2 CDK5 CDK3 PRPF4B WEE1 ABL1 CDK2 MAPK1 SRC MAP2K1 CDK1 GSK3B RET LYN PRPF4B GSK3A MAP2K1 TTK MAPK1 PTK2 JAK2 EGFR PTK2 MAPK3 PKMYT1 ERBB2 GSK3B DYRK1B ERBB2 FGR GSK3A DYRK1A BMX MAP2K2 MAPK3 MAPK14 MET KDR DYRK1B HIPK2 PTK2 INSR DYRK1A HIPK1 GSK3B YES1 MAPK14 YES1 GSK3A MAP2K3 YES1 SRC MAPK3 FYN FYN LCK MAP2K2 MAPK3 TNK2 FYN FGR KIT HIPK2 INSR ABL1 MAP2K6 HIPK1 IGF1R MAP2K6 SRMS PEAK1 SKMel28.Replicate.2 DYRK4 SKMel28.Replicate.2 MAP2K4 SKMel28.Replicate.2 ITK SKMel28.Replicate.2 LCK Kinome DYRK2 ActLoop ALK PSP MET NWK AXL AXL CDK5 PDGFRA 0 10 20 30 40 50 0 10 20 30 40 50 0 20 40 60 80 100 0 20 40 60 Not in PSP/NWK INKA SKMel28.Replicate.2 AXL 1 SRC ● 33 DYRK4 PEAK1 ● CDK17 0.9 MAPK3 30 HIPK3 0.8 26 GSK3APTK2 ●● GSK3B 0.7 23 0.6 20 Score 0.5 16 ● Relative Score Relative YES1FYN● 0.4 MAPK1 ● INSR ● 13 ● MAPK14 JAK2 ● 0.3 LCK ● 10 HIPK2 ● IGF1R ● LYN ● 0.2 CDK5 ● FGR ● 7 EPHA2 ● TYK2 ● 0.1 3 ABL2 ● AKT2 EPHA3MAPK10● ● BCR−ABL 0 2 4 6 ADRBK1Kinase−Centric● AKT1 Equal Substrate−CentricABL1 ● ALK EvidenceAKT3 Only Contribution EvidenceBMX Only Kinase−Centric Counts InKA Score SKMel28.Replicate.2 SRC MAPK3 PTK2 GSK3A GSK3B FYN YES1 INSR MAPK1 MAPK14 JAK2 LCK HIPK2 IGF1R LYN FGR CDK5 EPHA2 TYK2 ABL2 0 5 10 15 20 25 30 SKMel28.Replicate.2 GSK3A PEAK1 LCK LYN CDK2 PDGFRB CDK1 TYK2 ITK HIPK2 PRKACA IGF1R INSR PTPRA YES1 SRC PDGFRA FYN VCL KDR MAP2K4 EPHA2 EGFR MAP2K6 MAP3K6 BCAR1 MET MAP3K5 PTK2 MAP2K3 GSK3B MAPK14 SYK BMX MAP2K2 FGR ABL1 RET MAP2K1 MAPK3 ERBB2 STAT3 JAK2 PXN CDK5 MAPK1 ALK PTK2 SRC EGFR CDK1 MAPK14 RET ERBB2 CDK3 PRPF4B WEE1 MET CDK2 GSK3B MET INSR PTK2 GSK3A BMX ABL1 MAPK14 MAPK3 PKMYT1 LYN PRPF4B DYRK1B ERBB2 EPHA1 GSK3B DYRK1A PTK2 TTK GSK3A MAPK1 MAP2K1 MAP2K1 LYN YES1 ALK YES1 EPHA2 SRC FGR KDR MAPK3 LCK JAK2 FGR DYRK1B FYN EGFR FYN DYRK1A EPHA2 ABL1 KIT TNK2 HIPK2 MAP2K4 EPHA2 PEAK1 HIPK1 INSR ITK MAPK1 LYN MAP3K6 MAP2K6 YES1 H2228.Replicate.1 HCK H2228.Replicate.1 MAP3K5 H2228.Replicate.1 MAP2K7 H2228.Replicate.1 FYN Kinome INSR ActLoop MAP2K6 PSP MAPK3 NWK AXL IGF1R MAP2K3 FLT1 0 10 20 30 40 50 60 0 5 10 15 20 25 30 35 0 50 100 150 200 0 50 100 150 Not in PSP/NWK INKA H2228.Replicate.1 PEAK1 1 PTK2 ● 58 AXL DYRK4 SRC ● HIPK3 0.9 52 CDK17 ALK ● 0.8 46 0.7 40 LYN ● 0.6 MET ● 35 EGFR ● MAPK3 EPHA2● ● Score 0.5 INSR ● 29 FYN ● ABL1 ● Relative Score Relative YES1 ● MAPK14 ●GSK3A ● GSK3B 0.4 23 0.3 17 LCK ● MAPK1 ● ABL2 ● ● 0.2 HCK ● IGF1R 12 JAK2FGR● ● CDK1CDK2 ● HIPK2 ● TYK2 ● 0.1 FGFR1 FERCDK5● ● 6 EPHA3 ● AURKA EPHA4 ● EPHB4 EPHB3 ● AKT2 MAPK10 ● TGFBR2SYK ● 0 2 4 6 8 10 ALPK3Kinase−Centric● ARAF Equal ADRBK1Substrate−Centric● AKT1 EvidenceAURKB Only Contribution EvidenceAKT3 Only Kinase−Centric Counts InKA Score H2228.Replicate.1 PTK2 SRC ALK LYN MET EGFR EPHA2 MAPK3 INSR ABL1 FYN YES1 MAPK14 GSK3A GSK3B LCK MAPK1 ABL2 IGF1R HCK 0 10 20 30 40 50 H2228.Replicate.1 MAP3K5 MAP2K2 MAP2K3 DOCK4 JAK2 MAP2K6 GSK3A MAP2K1 EPHA2 GSK3B MAP2K4 MAPK3 MAPK14 TEC CDK2 MAPK1 MAP3K6 EPHA1 ITGB1 PEAK1 GAB2 EML4 PXN ABI1 RET INPPL1 ALK CTNNA1 VASP GPRC5A KDR HCK ABL2 LYN MST1R STAT3 FGR PTPN11 MAP2K7 CRK ABL1 BMX NCK1 EGFR KIT ITGB4 PRKCE INPP5D PTK2 MET CDK1 CTNNA2 MPZL1 BCAR1 ACTN1 ERBB2 TNK2 CBL GAB1 CAV1 CTNND1 VCL MUC1 CTTN LCK YES1 SHC1 PTPRE FYN SRC PAG1 INSR ITK IRS1 PTPRA IGF1R PDGFRA CD46 PDGFRB G6PD PIK3R1 NAMPT HIPK2 SDCBP PFN1 IRS2 AP2B1 PIK3R3 PRKACA PTTG1IP PRPF4B PRPF4B SRC EGFR CDK1 PTK2 WEE1 MET ALK MAPK14 RET ERBB2 CDK3 GSK3B MET ABL1 CDK2 GSK3A PKMYT1 INSR PTK2 MAPK3 ERBB2 LYN MAPK14 MAPK1 ALK TTK LYN DYRK1B BMX EPHA1 GSK3B DYRK1A JAK2 YES1 GSK3A EPHA2 MAP2K1 MAP2K1 TNK2 YES1 ABL1 FGR MAPK3 SRC PTK2 FYN MAPK1 LYN EGFR KDR DYRK1B LCK FGR KIT DYRK1A HIPK2 MAP2K4 ITK YES1 HIPK1 FYN TEC FYN HCK MAP3K5 MAPK3 EPHA2 H2228.Replicate.2 FYN H2228.Replicate.2 MAP2K6 H2228.Replicate.2 EPHA2 H2228.Replicate.2 HCK Kinome ABL2 ActLoop MAP2K3 PSP TYK2 NWK EGFR ABL1 INSR MAP2K7 0 10 20 30 40 50 0 10 20 30 40 50 0 50 100 150 200 0 50 100 150 Not in PSP/NWK INKA H2228.Replicate.2 PEAK1 1 SRC ● 50 AXL DYRK4 ALK ● PTK2 ● HIPK3 0.9 45 CDK17 ● 0.8 LYN 40 ● 0.7 EGFRMET ● 35 0.6 ABL1 ● 30 ● YES1FYN ● MAPK3 ● Score 0.5 25 GSK3A ● GSK3B Relative Score Relative MAPK14 ● EPHA2 ● 0.4 20 0.3 INSR ● 15 MAPK1 ● HCK ● LCK ERBB2 ● ABL2 ● JAK2 ● 0.2 CDK1CDK2 ● 10 ● HIPK2 TYK2 ●FGR ● EPHB4 ● CDK5 ● 0.1 EPHB3 ● IGF1R ● 5 TNK2 ● ERBB4 ● AURKA AKT2 FRK ● 0 1 2 3 4 5 ALPK3Kinase−Centric● ARAF Equal ADRBK1Substrate−Centric● AKT1 EvidenceAURKB Only Contribution EvidenceAKT3 Only Kinase−Centric Counts InKA Score H2228.Replicate.2 SRC ALK PTK2 LYN EGFR MET ABL1 FYN YES1 MAPK3 GSK3A GSK3B EPHA2 MAPK14 INSR HCK LCK MAPK1 ERBB2 ABL2 0 10 20 30 40 H2228.Replicate.2 PIK3R3 IRS1 PIK3R1 KIT ITGB1 NAMPT TEC NCK1 IRS2 CDK2 ABL2 MAP2K1 ITK INSR JAK2 GSK3B LYN HCK LCK FYN PTPRA MAPK3 ABL1 PXN INPP5D MAP2K2 PAG1 BCAR1 MAP2K3 MPZL1 MAPK1 PDGFRB GAB2 FGR CTNND1 CAV1 MAPK14 MAP3K6 PTTG1IP GAB1 RET HIPK2 INPPL1 CDK1 EPHA2 MAP3K5 G6PD SRC PRKACA MET MAP2K4 CTTN BMX MST1R ADRBK1 PTK2 PDGFRA EGFR MAP2K6 AP2B1 SHC1 MUC1 CBL PRKCE ITGB4 SDCBP GSK3A CD46 CAMK2A EML4 ERBB2 KDR PTPN11 GPRC5A EPHA1 YES1 TNK2 STAT3 VCL ALK HSP90AA1 TNS3 VIM ACTN1 ARHGAP35 HSP90AA2P MAP2K7 PTPRE BCR PRPF4B SRC ABL1 ABL1 MAPK1 WEE1 MET CDK1 ABL1 LYN ABL2 CDK3 ABL2 FYN LYN CDK2 MAPK14 HCK BTK PRPF4B DYRK1B ABL1 TTK ABL2 DYRK1A PKMYT1 EGFR MAPK1 MAPK3 ERBB2 KIT MAPK14 GSK3B BCR−ABL NTRK1 PEAK1 GSK3A RET MAP2K1 LYN YES1 JAK2 ERBB2 DYRK1B SRC MAP2K1 TYK2 DYRK1A FYN LCK PDGFRB MAPK3 HIPK2 MET TEC BTK HIPK1 SYK FLT1 TNK2 LYN ABL2 ITK GSK3B LCK ALK INSR GSK3A K562.Replicate.1 HCK K562.Replicate.1 MAPK3 K562.Replicate.1 MAPK1 K562.Replicate.1 YES1 Kinome DDR1 ActLoop MAP3K5 PSP YES1 NWK FYN HIPK3 MAP2K4 FGR 0 50 100 150 0 10 20 30 40 50 60 0 50 100 150 200 250 0 50 100 150 200 Not in PSP/NWK INKA K562.Replicate.1 PEAK1 1 ABL1 ● 273 DDR1 HIPK3 CDK17 0.9 245 DYRK4 AXL 0.8 218 FAM20B 0.7 191 0.6 164 Score 0.5 136 ABL2 ● Relative Score Relative 0.4 109 LYN ● 0.3 82 SRC ● MAPK1 ● FYN ● 0.2 BTK ● 55 MAPK3 ● HCK ● 0.1 YES1 ● LCK ● 27 GSK3A ● GSK3B JAK2 ● CDK1CDK2AKT3● ● TNK2 ● BCR−ABL MAPK14 HIPK2 ● SYK ● ●● PTK2 ● ● ●BMXTYK2FGRTEC● 0 5 10 15 20 ADRBK1Kinase−Centric● AKT2 EPHB4 ● MAPK10AURKAEqual● CDK5 PRKCB Substrate−CentricAKT1 ● ALK EvidenceALPK3 Only Contribution EvidenceBLK Only Kinase−Centric Counts InKA Score K562.Replicate.1 ABL1 ABL2 LYN SRC FYN MAPK1 BTK MAPK3 HCK YES1 LCK GSK3A GSK3B JAK2 TNK2 CDK1 CDK2 MAPK14 HIPK2 SYK 0 50 100 150 200 250 K562.Replicate.1 ARHGAP35 PRKACA CD46 YES1 ACTN1 CTTN GSK3A GAB1 PTPRA PTTG1IP G6PD MAP2K3 PFN1 MAP3K6 SHC1 MAP3K5 PTK2 PDGFRA HIPK2 ERBB2 SRC PKMYT1 MAPK14 MAP2K6 PDGFRB EGFR FGR STAT5B MPZL1 TTK MAP2K4 BMX WEE1 ABL2 CDK1 PRKCD NTRK1 HCK GSK3B CDK2 RET CRK TNK2 PEAK1 STAT5A ABL1 INPPL1 ABI1 KIT MAPK1 LYN DOK1 BCR JAK2 MAP2K1 NTRK2 WAS MAPK3 GAB2 NCK1 PLCG1 BTK SYK TEC FYN LCK MAP2K2 DOK2 FCGR2A FCGR2C FYB ITK CBL PIK3R2 SH2D2A BCR PRPF4B SRC ABL1 ABL1 ABL1 WEE1 MET CDK1 MAPK1 LYN ABL2 CDK3 ABL2 FYN LYN CDK2 MAPK14 HCK BTK PRPF4B MAPK3 ABL1 TTK ABL2 GSK3B PKMYT1 KIT MAPK1 GSK3A ERBB2 EGFR MAPK14 DYRK1B BCR−ABL NTRK1 LYN DYRK1A RET MAP2K1 BTK YES1 JAK2 ERBB2 MAPK3 SRC MAP2K1 TYK2 GSK3A FYN LCK ITK PEAK1 HIPK2 MET TEC GSK3B HIPK1 ABL2 FLT1 DYRK1B LYN ALK YES1 DYRK1A LCK SYK FGR YES1 K562.Replicate.2 HCK K562.Replicate.2 MAPK3 K562.Replicate.2 MAPK1 K562.Replicate.2 TNK2 Kinome PTK2 ActLoop EGFR PSP INSR NWK FYN DDR1 MAP2K4 PDGFRB 0 50 100 150 0 10 20 30 40 50 0 50 100 150 200 250 0 50 100 150 200 Not in PSP/NWK INKA K562.Replicate.2 PEAK1 1 ABL1 ● 269 DDR1 HIPK3 CDK17 0.9 242 DYRK4 AXL 0.8 215 TRIM28 0.7 188 0.6 161 Score 0.5 ABL2 ● 135 Relative Score Relative 0.4 108 LYN ● 0.3 81 FYNSRC● ● 0.2 MAPK1 ● BTK ● 54 MAPK3 ● HCK ● ● 0.1 ● YES1 ● 27 CDK1CDK2 GSK3AGSK3B ●● LCK JAK2 ● AKT3 ● TECTTKBCR−ABL● ● ● HIPK2● ●TNK2 SYKFGR ●●● MAPK14 ● PTK2 ● ● CDK5 ● ● TYK2 0 5 10 15 ADRBK1Kinase−CentricPRKCD● AKT2 MAPK10EPHB4 ● AURKAFEREqual● PRKCB Substrate−CentricAKT1 ● ALK EvidenceALPK3 Only Contribution EvidenceBLK Only Kinase−Centric Counts InKA Score K562.Replicate.2 ABL1 ABL2 LYN FYN SRC BTK MAPK1 HCK MAPK3 YES1 CDK1 CDK2 LCK GSK3A GSK3B JAK2
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