Extending signalling pathways with protein-interaction networks. Application to apoptosis.


Extending signalling pathways with protein-interaction networks. Application to apoptosis.
Joan Planas-Iglesias, Emre Guney, Javier Garcia-Garcia, Kevin A. Robertson, Sobia Raza, Tom C. Freeman, Peter Ghazal and Baldo Oliva.
OMICS. 2012 May;16(5):245-56. Epub 2012 Mar 2. (PMID: 22385281)

Supplementary materials for "Extending signalling pathways with protein-interaction networks. Application to apoptosis."

Supplementary table 7

Table S7. New apoptosis candidates and their potential interaction with seed proteins. Proteins predicted to be new members of the apoptosis pathways are shown in the first column (Candidates). The second column (Interacting seed proteins) shows the potential seed proteins interactors for each predicted candidate.


Candidates Interacting seed proteins
KS6A1_HUMAN IKBA_HUMAN
Q7Z7F1_HUMAN TNR1A_HUMAN
CAC1H_HUMAN CASP8_HUMAN, DAXX_HUMAN, CASPA_HUMAN, TNR6_HUMAN, TNF10_HUMAN, TNR1A_HUMAN
HSP7C_HUMAN CYC_HUMAN, TNR1A_HUMAN
CH60_HUMAN CASP6_HUMAN, LAMA_HUMAN, ACINU_HUMAN, BAK_HUMAN, CASP3_HUMAN
CIKS_HUMAN IKKB_HUMAN, IKKA_HUMAN, TRAF2_HUMAN
Q96EK7_HUMAN TRAF2_HUMAN
PML_HUMAN DAXX_HUMAN, P53_HUMAN
Q5JTM4_HUMAN TRAF2_HUMAN
Q9BUZ3_HUMAN TRAF2_HUMAN
TNR9_HUMAN TRAF2_HUMAN, TNR1A_HUMAN
Q96AW0_HUMAN TRAF2_HUMAN
NF2L2_HUMAN CASP1_HUMAN, CASP3_HUMAN
NTHL1_HUMAN P53_HUMAN
RIR2_HUMAN P53_HUMAN
Q53GN5_HUMAN TRAF2_HUMAN
Q12844_HUMAN P53_HUMAN, BCL2_HUMAN, E2AK2_HUMAN, BCLX_HUMAN
NUCL_HUMAN P53_HUMAN, PARP1_HUMAN
PIAS1_HUMAN P53_HUMAN
Q53QD8_HUMAN BCLX_HUMAN
TAOK3_HUMAN TRAF2_HUMAN
ERCC3_HUMAN P53_HUMAN
Q5T7S2_HUMAN DAXX_HUMAN, IKBA_HUMAN, BIRC4_HUMAN
Q5JSD2_HUMAN CYC_HUMAN, BAK_HUMAN
M4K5_HUMAN TRAF2_HUMAN
Q8TAW9_HUMAN CASP3_HUMAN
Q53TI5_HUMAN TRAF2_HUMAN
B2L12_HUMAN BCLX_HUMAN
PABP1_HUMAN IF2A_HUMAN
SYQ_HUMAN TRAF2_HUMAN
TBK1_HUMAN IKKB_HUMAN, IKKA_HUMAN, TRAF2_HUMAN
1433S_HUMAN BAXC_HUMAN, BAXB_HUMAN, BAXD_HUMAN, BAXA_HUMAN, BAD_HUMAN
AKT2_HUMAN IKKB_HUMAN, IKKA_HUMAN, BAD_HUMAN, IKBA_HUMAN
Q53BH6_HUMAN CASP2_HUMAN
TNR8_HUMAN TNR6_HUMAN, BCL2_HUMAN, TRAF2_HUMAN, TNR1A_HUMAN
Q8IZ48_HUMAN TNR6_HUMAN, TRAF2_HUMAN
COMD1_HUMAN IKBA_HUMAN, BIRC4_HUMAN
Q3SY13_HUMAN BCLX_HUMAN
Q71T04_HUMAN CASP2_HUMAN, BCLX_HUMAN, BID_HUMAN
Q53TC8_HUMAN TRAF2_HUMAN
Q53SF9_HUMAN TRAF2_HUMAN
VDAC2_HUMAN CYC_HUMAN, BAK_HUMAN
Q7Z6Q2_HUMAN IKKB_HUMAN, IKKA_HUMAN, TRAF2_HUMAN
Q99618_HUMAN TNR6_HUMAN, TR10A_HUMAN, TRAF2_HUMAN, TNR1A_HUMAN
RB6I2_HUMAN IKBA_HUMAN
Q6NW12_HUMAN TRAF2_HUMAN
M3K1_HUMAN IKBA_HUMAN, TRADD_HUMAN, TRAF2_HUMAN, CASP7_HUMAN, RIPK1_HUMAN, IKKB_HUMAN, IKKA_HUMAN, TNR1A_HUMAN
HIF1A_HUMAN P53_HUMAN
Q16526_HUMAN TRAF2_HUMAN
NCB5R_HUMAN CYC_HUMAN
Q8TBA7_HUMAN P53_HUMAN, TNR1A_HUMAN
Q5JTM3_HUMAN TRAF2_HUMAN
Q96IS6_HUMAN CYC_HUMAN, TNR1A_HUMAN
Q2TB79_HUMAN P53_HUMAN
Q86SI0_HUMAN P53_HUMAN
Q5SQL5_HUMAN P53_HUMAN
PIN1_HUMAN P53_HUMAN, BCL2_HUMAN, TNFA_HUMAN, TRAF2_HUMAN
TNR4_HUMAN TRAF2_HUMAN, TNR1A_HUMAN
Q96IF6_HUMAN TNR6_HUMAN, TRAF2_HUMAN
Q9BTG7_HUMAN TRAF2_HUMAN
Q5SQL2_HUMAN P53_HUMAN
Q5BKZ4_HUMAN BCLX_HUMAN, TNR1A_HUMAN
DVL2_HUMAN P53_HUMAN, TNFA_HUMAN, TRAF2_HUMAN
CABL2_HUMAN P53_HUMAN, IF2A_HUMAN
TOP2A_HUMAN DFFB_HUMAN, DFFA_HUMAN
ANXA5_HUMAN CASP8_HUMAN, TNR6_HUMAN, BAXB_HUMAN, BAXD_HUMAN, CASP3_HUMAN, BAXA_HUMAN, BAXC_HUMAN, CASP9_HUMAN, BCL2_HUMAN, BCLX_HUMAN, TR10B_HUMAN, TNF10_HUMAN
KC1D_HUMAN P53_HUMAN, IKKB_HUMAN
Q8N632_HUMAN TRAF2_HUMAN
Q12845_HUMAN P53_HUMAN, BCL2_HUMAN, E2AK2_HUMAN, BCLX_HUMAN
Q8N634_HUMAN TRAF2_HUMAN, TNR1A_HUMAN
Q53QD5_HUMAN CASP6_HUMAN, BAK_HUMAN, CASP3_HUMAN
TISB_HUMAN P53_HUMAN
Q93046_HUMAN P53_HUMAN
Q5JTE9_HUMAN FADD_HUMAN
Q5TAV5_HUMAN P53_HUMAN
Q96AW5_HUMAN TRAF2_HUMAN
Q5R3A3_HUMAN IKKB_HUMAN, IKKA_HUMAN, TRAF2_HUMAN
IRAK1_HUMAN IKKA_HUMAN, FADD_HUMAN, E2AK2_HUMAN, IKKB_HUMAN, IKBA_HUMAN
Q6P2H9_HUMAN TRAF2_HUMAN
HS90A_HUMAN IKKB_HUMAN, IF2A_HUMAN, E2AK2_HUMAN, TNFA_HUMAN, RIPK1_HUMAN, P53_HUMAN, IKKA_HUMAN, TNR1A_HUMAN
Q96GK1_HUMAN TRAF2_HUMAN
LAM1_HUMAN CASP6_HUMAN, CASP2_HUMAN, CASP3_HUMAN, LAMA_HUMAN
PPRB_HUMAN RIPK1_HUMAN, P53_HUMAN
Q69BM3_HUMAN BCLX_HUMAN
PLK3_HUMAN P53_HUMAN
FBW1B_HUMAN IKBA_HUMAN
Q5T3J9_HUMAN P53_HUMAN
CYB5_HUMAN CYC_HUMAN
Q69BL8_HUMAN BCLX_HUMAN
Q5SQL1_HUMAN P53_HUMAN
PNPH_HUMAN P53_HUMAN, E2AK2_HUMAN
CBP_HUMAN DAXX_HUMAN, HTRA2_HUMAN, P53_HUMAN
Q7LG56_HUMAN P53_HUMAN
Q6PI38_HUMAN P53_HUMAN
Q8NFL2_HUMAN P53_HUMAN, TRAF2_HUMAN
M3K3_HUMAN RIPK1_HUMAN, IKKB_HUMAN, IKKA_HUMAN
Q4VXV4_HUMAN P53_HUMAN
IF2B_HUMAN P53_HUMAN, E2AK2_HUMAN, IF2A_HUMAN
DYL2_HUMAN BIRC4_HUMAN
Q4VY19_HUMAN BCL2_HUMAN, BID_HUMAN, BCLX_HUMAN, BAD_HUMAN
Q96SH0_HUMAN P53_HUMAN
Q69BM2_HUMAN BCLX_HUMAN
Q96RU3_HUMAN TNFL6_HUMAN
Q69BM5_HUMAN BCLX_HUMAN
Q9BQF7_HUMAN TRAF2_HUMAN
TS101_HUMAN P53_HUMAN
Q5VWK1_HUMAN CYC_HUMAN, BAK_HUMAN
Q8IYN1_HUMAN TRAF2_HUMAN
ROAA_HUMAN IKBA_HUMAN
Q8N717_HUMAN P53_HUMAN
Q6IAX4_HUMAN BCLX_HUMAN
Q5JZA5_HUMAN TRAF2_HUMAN, TNR1A_HUMAN
Q6Q322_HUMAN TRAF2_HUMAN, TNR1A_HUMAN
Q8N1C6_HUMAN P53_HUMAN
Q6IB40_HUMAN CYC_HUMAN, BAK_HUMAN
P2AA_HUMAN P53_HUMAN, HTRA2_HUMAN, BCL2_HUMAN
Q5VUI8_HUMAN TRAF2_HUMAN
HMG2_HUMAN DFFB_HUMAN, P53_HUMAN, DFFA_HUMAN
Q4VXV5_HUMAN P53_HUMAN
RFX3_HUMAN TRAF2_HUMAN
AP1_HUMAN IKKA_HUMAN, IKBA_HUMAN
L1CAM_HUMAN IKKA_HUMAN, FADD_HUMAN, E2AK2_HUMAN, IKKB_HUMAN, IKBA_HUMAN
MK01_HUMAN CASP9_HUMAN, BCL2_HUMAN, BCLX_HUMAN, BAD_HUMAN, IKBA_HUMAN
Q5U007_HUMAN TNR6_HUMAN, TRADD_HUMAN, TRAF2_HUMAN, BCL2_HUMAN, BCLX_HUMAN, TNR1A_HUMAN
Q12800_HUMAN CASP8_HUMAN
Q96KX3_HUMAN P53_HUMAN
CAN1_HUMAN BID_HUMAN, IKBA_HUMAN
CYLD_HUMAN IKKA_HUMAN, TRAF2_HUMAN
Q6Y4Q7_HUMAN CASP7_HUMAN, TRAF2_HUMAN, TNR1A_HUMAN
ETS1_HUMAN DAXX_HUMAN, IKBA_HUMAN
IPYR_HUMAN P53_HUMAN, TR10B_HUMAN
Q7Z4M9_HUMAN TR10B_HUMAN, TNR6_HUMAN, DBLOH_HUMAN, CASP2_HUMAN, BIRC4_HUMAN, BAXD_HUMAN, CASP7_HUMAN, CASP9_HUMAN, CYC_HUMAN, PDCD8_HUMAN, FADD_HUMAN, CASP8_HUMAN, APAF_HUMAN, BAXA_HUMAN, BCL2_HUMAN, BCLX_HUMAN, BAD_HUMAN, TR10A_HUMAN, TNF10_HUMAN, BID_HUMAN, BAXB_HUMAN, CASPA_HUMAN, CASP3_HUMAN, BAXC_HUMAN, BAK_HUMAN
Q9NS52_HUMAN P53_HUMAN
TANK_HUMAN IKKB_HUMAN, TRAF2_HUMAN
ADT1_HUMAN BAXC_HUMAN, BAXB_HUMAN, BAXD_HUMAN, BAXA_HUMAN, IKBA_HUMAN
ZN205_HUMAN TRAF2_HUMAN
Q6I9Y7_HUMAN P53_HUMAN
MIZF_HUMAN TRAF2_HUMAN
PARP3_HUMAN PARP1_HUMAN
CCNH_HUMAN P53_HUMAN
Q502Z6_HUMAN IF2A_HUMAN
MYD88_HUMAN FADD_HUMAN, IKKA_HUMAN
Q9BQ59_HUMAN BCLX_HUMAN
AAPK2_HUMAN E2AK2_HUMAN
HIPK1_HUMAN DAXX_HUMAN, P53_HUMAN, E2AK2_HUMAN
Q9NYJ8_HUMAN IKKA_HUMAN, E2AK2_HUMAN, BIRC4_HUMAN
IKBB_HUMAN IKKB_HUMAN, IKKA_HUMAN, IKBA_HUMAN
ERCC2_HUMAN P53_HUMAN
Q8IY86_HUMAN CASP2_HUMAN, BCLX_HUMAN, BID_HUMAN
Q49AR7_HUMAN P53_HUMAN, TRAF2_HUMAN
AP2A_HUMAN P53_HUMAN
Q96G48_HUMAN FADD_HUMAN
Q9NWA1_HUMAN P53_HUMAN
TNR11_HUMAN TRAF2_HUMAN
Q5T1L7_HUMAN TRAF2_HUMAN, TNR1A_HUMAN
Q96SH1_HUMAN P53_HUMAN
EP300_HUMAN P53_HUMAN, RIPK1_HUMAN, HTRA2_HUMAN, BCL2_HUMAN
Q5ZEZ1_HUMAN P53_HUMAN
Q5T9G8_HUMAN P53_HUMAN
Q4ZFV6_HUMAN BCLX_HUMAN
PPA5_HUMAN TNF10_HUMAN
KLF4_HUMAN P53_HUMAN
CRTAP_HUMAN TR10B_HUMAN, CASP2_HUMAN, CASP3_HUMAN, CASP4_HUMAN
NRIP1_HUMAN RIPK1_HUMAN, TRAF2_HUMAN
PERI_HUMAN CASP8_HUMAN, CASP9_HUMAN
Q4ZG76_HUMAN TRAF2_HUMAN
Q5JTF1_HUMAN FADD_HUMAN
BCN1_HUMAN BCL2_HUMAN, BCLX_HUMAN
ABCA1_HUMAN IKKB_HUMAN, APAF_HUMAN, E2AK2_HUMAN, RIPK1_HUMAN, FADD_HUMAN, IKKA_HUMAN
K1C18_HUMAN TRADD_HUMAN, CASP3_HUMAN
PSN2_HUMAN BCLX_HUMAN
Q9BWK8_HUMAN CYC_HUMAN, BAK_HUMAN
FLNA_HUMAN TRAF2_HUMAN, IF2A_HUMAN, LAMA_HUMAN
Q5JTE7_HUMAN FADD_HUMAN
AIOL_HUMAN HTRA2_HUMAN, BCLX_HUMAN
DP13A_HUMAN TRAF2_HUMAN
Q5SQT6_HUMAN P53_HUMAN
Q9UML1_HUMAN CYC_HUMAN
Q6FH51_HUMAN BAD_HUMAN
Q5JSD1_HUMAN CYC_HUMAN, BAK_HUMAN
Q96C41_HUMAN BCL2_HUMAN, BCLX_HUMAN
1433B_HUMAN BCL2_HUMAN, BID_HUMAN, BCLX_HUMAN, BAD_HUMAN
M3K14_HUMAN CASP8_HUMAN, E2AK2_HUMAN, TRADD_HUMAN, TRAF2_HUMAN, TNR1A_HUMAN, RIPK1_HUMAN, IKKB_HUMAN, IKKA_HUMAN, IKBA_HUMAN
Q7Z6Q3_HUMAN IKKB_HUMAN, IKKA_HUMAN, TRAF2_HUMAN
M4K3_HUMAN TRAF2_HUMAN
NEMO_HUMAN RIPK1_HUMAN, IKKB_HUMAN, IKKA_HUMAN, TNR1A_HUMAN, IKBA_HUMAN
TOP2B_HUMAN P53_HUMAN, PARP1_HUMAN, TNFA_HUMAN
Q69BL9_HUMAN BCLX_HUMAN
Q69BL7_HUMAN BCLX_HUMAN
Q5JTF0_HUMAN FADD_HUMAN
Q53T51_HUMAN TRAF2_HUMAN
CTNB1_HUMAN CASP8_HUMAN, IKKB_HUMAN, IKKA_HUMAN, CASP3_HUMAN
Q3SYD7_HUMAN P53_HUMAN
Q99638_HUMAN BCL2_HUMAN, BCLX_HUMAN
Q5STV3_HUMAN FAF1_HUMAN, TNF10_HUMAN, TR10B_HUMAN, TNFA_HUMAN, TNR1A_HUMAN
NEO1_HUMAN CASP3_HUMAN
Q5CAQ7_HUMAN P53_HUMAN, TNR1A_HUMAN
TP4AP_HUMAN TRADD_HUMAN, TRAF2_HUMAN, RIPK1_HUMAN, IKKB_HUMAN, IKKA_HUMAN, TNR1A_HUMAN
Q96H53_HUMAN CYC_HUMAN, TNR1A_HUMAN
Q9ULC9_HUMAN FADD_HUMAN
Q96HX7_HUMAN P53_HUMAN, TNR1A_HUMAN
CATG_HUMAN CASP7_HUMAN, HTRA2_HUMAN
Q6LD16_HUMAN P53_HUMAN
MPRI_HUMAN TNR6_HUMAN, TNR1A_HUMAN
Q69BL6_HUMAN BCLX_HUMAN
Q5VWK3_HUMAN CYC_HUMAN, BAK_HUMAN
Q5T1L8_HUMAN TRAF2_HUMAN, TNR1A_HUMAN
TNR17_HUMAN TNF10_HUMAN, TNFA_HUMAN, TRAF2_HUMAN, BIRC4_HUMAN
IMA2_HUMAN P53_HUMAN, ACINU_HUMAN, LAMA_HUMAN
NALP4_HUMAN IKKA_HUMAN
Q12843_HUMAN P53_HUMAN, BCL2_HUMAN, E2AK2_HUMAN, BCLX_HUMAN
Q5CAQ6_HUMAN P53_HUMAN, TNR1A_HUMAN
Q69BM1_HUMAN BCLX_HUMAN
Q8N574_HUMAN BCLX_HUMAN
ANTR1_HUMAN TNR6_HUMAN, BCLX_HUMAN
M3K2_HUMAN IKKB_HUMAN, IKKA_HUMAN
PARP2_HUMAN PARP1_HUMAN
ZN646_HUMAN TRAF2_HUMAN
Q6LBI3_HUMAN P53_HUMAN
Q9UD77_HUMAN CASP8_HUMAN
Q5T3J6_HUMAN P53_HUMAN
MX1_HUMAN DAXX_HUMAN, E2AK2_HUMAN
BCR_HUMAN P53_HUMAN, BCL2_HUMAN, E2AK2_HUMAN, BCLX_HUMAN
GORS2_HUMAN TRAF2_HUMAN
Q6DC98_HUMAN CASP6_HUMAN, CASP3_HUMAN, LAMA_HUMAN
Q2TB78_HUMAN P53_HUMAN
TOP1_HUMAN P53_HUMAN, E2AK2_HUMAN, PARP1_HUMAN
Q53QV1_HUMAN TRAF2_HUMAN
SOX30_HUMAN TRAF2_HUMAN
Q7Z6Q1_HUMAN IKKB_HUMAN, IKKA_HUMAN, TRAF2_HUMAN
Q96EC6_HUMAN BCLX_HUMAN
AP2C_HUMAN P53_HUMAN
Q5T5T6_HUMAN TRAF2_HUMAN, TNR1A_HUMAN
Q9BWP7_HUMAN DAXX_HUMAN, P53_HUMAN
Q6DHV4_HUMAN BID_HUMAN, IKBA_HUMAN
Q9UHB7_HUMAN ACINU_HUMAN, TRAF2_HUMAN, LAMA_HUMAN
Q6FI29_HUMAN BCLX_HUMAN
Q6IB95_HUMAN TNF10_HUMAN, TR10B_HUMAN, TNFA_HUMAN, TRAF2_HUMAN, TNR1A_HUMAN
Q6IQ37_HUMAN CASP7_HUMAN, CASP2_HUMAN, CASP3_HUMAN
CDC2_HUMAN P53_HUMAN, BCL2_HUMAN, CASP3_HUMAN
UBE3A_HUMAN P53_HUMAN
Q4VBQ6_HUMAN P53_HUMAN
PP1A_HUMAN P53_HUMAN, E2AK2_HUMAN, IF2A_HUMAN
Q4VXV6_HUMAN P53_HUMAN
Q6B838_HUMAN RIPK1_HUMAN, TR10B_HUMAN, CASP3_HUMAN
STK11_HUMAN P53_HUMAN
GSPT1_HUMAN TRAF2_HUMAN, BIRC4_HUMAN
Q5JTE6_HUMAN FADD_HUMAN
PARVG_HUMAN CASP3_HUMAN
Q6FGB5_HUMAN P53_HUMAN
Q4VY20_HUMAN BCL2_HUMAN, BID_HUMAN, BCLX_HUMAN, BAD_HUMAN
WT1_HUMAN P53_HUMAN
IKBE_HUMAN IKKB_HUMAN, IKKA_HUMAN, IKBA_HUMAN
DTNB_HUMAN TRAF2_HUMAN
Q69BM0_HUMAN BCLX_HUMAN
P2BA_HUMAN BCL2_HUMAN, CASP3_HUMAN, BAD_HUMAN, IKBA_HUMAN
Q5VW83_HUMAN BCLX_HUMAN
Q5JTE8_HUMAN FADD_HUMAN
Q3SYD8_HUMAN P53_HUMAN
Q53SE2_HUMAN CASP6_HUMAN, BAK_HUMAN, CASP3_HUMAN
Q15959_HUMAN DAXX_HUMAN, P53_HUMAN
Q5STB2_HUMAN FAF1_HUMAN, TNFA_HUMAN, TNR1A_HUMAN
DYNA_HUMAN CASP7_HUMAN, CASP2_HUMAN, CASP3_HUMAN
IRF4_HUMAN BCL2_HUMAN, TRAF2_HUMAN
KPCZ_HUMAN FADD_HUMAN, TNFA_HUMAN
FSTL1_HUMAN TR10B_HUMAN, APAF_HUMAN
IL1B_HUMAN CASP1_HUMAN
Q5SQL3_HUMAN P53_HUMAN
ORN_HUMAN BAD_HUMAN
RD23A_HUMAN DAXX_HUMAN, TRAF2_HUMAN
Q86VR4_HUMAN TRAF2_HUMAN
Q9NS56_HUMAN P53_HUMAN
SYSM_HUMAN CASP3_HUMAN


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