Table 1

Human protein candidates and their pathway catalogues in this study.

TNF

IL-1

MyD88-dependent TLR-4

MyD88-independent TLR-4

Negative regulators


TNF

IL1α

MyD88

TLR4

A20

TNFR1

IL1β

TIRAP

TRAM

CYLD

TNFR2

IL1R1

CD14

TRIF

FLN29

TRADD

IL1R2

PELI2

TRAF3

IRAK3

FADD

TOLLIP

IRAK4

TANK

NOD2

GRB2

ST2L

IRAK1

TBK1

RIP3

SOS1

PELI1

NIK

IKKε

PTPN11

CAV1

ECSIT

BCL10

IRF3

RNF216

CASP8

SARM

TRAF2

SIGIRR

TRAF5

SOCS1

TTRAP

TMED1

TRAF6

TNIP3

RIP

TRAF4

MEKK3

UBE2N

TAK1

TAB1

TAB2

IKKα

IKKβ

IKKγ


Proteins in the cross-talk analysis are classified into three major pathways, including TNFα, IL-1, TLR-4 (for both MyD88-dependent and MyD88-independent) pathways. The full names of these proteins are listed in the following. BCL10: B-cell CLL/lymphoma 10, NOD2: nucleotide-binding oligomerization domain containing 2, CASP8: caspase 8, apoptosis-related cysteine peptidase, CAV1: caveolin 1, caveolae protein, 22 kDa, CD14: CD14 molecule, IKKα: conserved helix-loop-helix ubiquitous kinase, CYLD: cylindromatosis (turban tumor syndrome), FADD: Fas (TNFRSF6)-associated via death domain, GRB2: growth factor receptor-bound protein 2, IKKβ: inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase beta, IKKε: inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase epsilon, IKKγ: inhibitor of kappa light polypeptide gene enhancer in B-cells, kinase gamma, IL1α: interleukin 1, alpha, IL1β: interleukin 1, beta, IL1R1: interleukin 1 receptor, type I, IL1R2: interleukin 1 receptor, type II, ST2L: interleukin 1 receptor-like 1, IRAK1: interleukin-1 receptor-associated kinase 1, IRAK3: Interleukin-1 receptor-associated kinase 3, IRAK4: interleukin-1 receptor-associated kinase 4, IRF3: interferon regulatory factor 3, NIK: mitogen-activated protein kinase kinase kinase 14, MEKK3: mitogen-activated protein kinase kinase kinase 3, TAK1: Mitogen-activated protein kinase kinase kinase 7, TAB1: mitogen-activated protein kinase kinase kinase 7 interacting protein 1, TAB2: mitogen-activated protein kinase kinase kinase 7 interacting protein 2, MyD88: myeloid differentiation primary response gene (88), PELI1: pellino homolog 1 (Drosophila), PELI2: pellino homolog 2 (Drosophila), PTPN11: protein tyrosine phosphatase, non-receptor type 11 (Noonan syndrome 1), RIP: receptor (TNFRSF)-interacting serine-threonine kinase 1, RIP3: receptor-interacting serine-threonine kinase 3, SARM: sterile alpha and TIR motif containing 1, SIGIRR: single immunoglobulin and toll-interleukin 1 receptor (TIR) domain, ECSIT: ECSIT homolog (Drosophila), SOCS1: suppressor of cytokine signaling 1, SOS1: Son of sevenless homolog 1 (Drosophila), TANK: TRAF family member-associated NFKB activator, TBK1: TANK-binding kinase 1, TIRAP: toll-interleukin 1 receptor (TIR) domain containing adaptor protein, TLR4: toll-like receptor 4, TMED1: transmembrane emp24 protein transport domain containing 1, TNF: tumor necrosis factor (TNF superfamily, member 2), A20: tumor necrosis factor, alpha-induced protein 3, TNFR1: tumor necrosis factor receptor superfamily, member 1A, TNFR2: tumor necrosis factor receptor superfamily, member 1B, TNIP3: TNFAIP3 interacting protein 3, TOLLIP: toll interacting protein, TRADD: TNFRSF1A-associated via death domain, TRAF2: TNF receptor-associated factor 2, TRAF3: TNF receptor-associated factor 3, TRAF4: TNF receptor-associated factor 4, TRAF5: TNF receptor-associated factor 5, TRAF6: TNF receptor-associated factor 6, FLN29: TRAF-type zinc finger domain containing 1, TRAM: toll-like receptor adaptor molecule 2, RNF216: TRIAD3 protein, TRIF: toll-like receptor adaptor molecule 1, TTRAP: TRAF and TNF receptor associated protein, UBE2N: ubiquitin-conjugating enzyme E2N (UBC13 homolog, yeast)

Yang et al. BMC Medical Genomics 2010 3:19   doi:10.1186/1755-8794-3-19

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