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Table 3 The significant GO-terms GO-id and KEGG pathways found in the bicliques extracted from HV _ negative matrix, considering interaction types and direction of the interactions

From: Incorporating the type and direction information in predicting novel regulatory interactions between HIV-1 and human proteins using a biclustering approach

Biclique

HIV protein

Human protein

GO term (bp)

GO term (cc)

GO term (mf)

KEGG pathway

1

env_gp120 env_gp160 env_gp41

MAN1B1 MGAT2 MAN2C1 MAN2A1 MAN2A2 MANBA GBA3 MAN2B2 GAA MAN2B1 MAN1A1 MAN1A2 MAN1C1 GCS1 GANAB GANC GBA2

Mannose metabolic process (GO:0006013) (4.5E-11)

Golgi apparatus part (GO:0044431) (6.9E-6)

Mannosidase activity (GO:0015923) (8.7E-25)

N-Glycan biosynthesis (1.0E-11)

2

Rev capsid matrixnucleocapsid p1 p6

UBB UBC UBD

Long-term strengthening of neuromuscular junction (GO:0042062) (7.4E-4)

Cytosolic small ribosomal subunit (GO:0022627) (3.1E-3)

Structural constituent of ribosome (GO:0003735) (1.3E-2)

Not found

3

Rev Tat matrix p6

MAPK1 MAPK3 UBB UBC UBD

Cell cycle (GO:0007049)(7.2E-4)

Nucleoplasm (3.3E-4)

MAP kinase activity (GO:0004707) (3.2E-3)

Dorso-ventral axisformation (1.5E-2)

4

RT Vif env_gp120

IFNA1 IFNA16 IFNA2 IFNA7

Response to virus (GO:0009615) (5.1E-7)

Extracellular space (GO:0005615) (1.5E-4)

Interferon-alpha/beta receptor binding (GO:0005132) (2.3E-10)

Regulation of autophagy (3.0E-7)

5

Rev Vpu matrix retropepsin

CSNK2A1 CSNK2A2 CSNK2B

Wnt receptor signaling pathway (GO:0016055) (GO:0016055) (9.6E-5)

Not found

Protein serine/threoninekinase activity (Adherensjunction (2.3E-4)

 

6

Rev Tat Vif matrix p6

MAPK1 MAPK3

Ras protein signaltransduction (GO:0007265) (7.8E-3)

Nucleolus (GO:0005730)(5.5E-2)

MAP kinase activity (GO:0004707) (1.1E-3)

Dorso-ventral axis formation (4.9E-3)

7

RT Rev Vpu matrix retropepsin

CSNK2A1 CSNK2B

Wnt receptor signaling pathway (GO:0016055) (9.8E-3)

Not found

Protein serine/threonine kinase activity (GO:0004674) (3.3E-2)

Adherens junction (1.5E-2)

8

RT Rev matrix

CSNK2A1 CSNK2B PRKCA

Wnt receptor signaling pathway (GO:0016055) (2.0E-2)

Not found

Protein serine/threonine kinase activity (GO:0004674) (1.1E-3)

Tight junction junction (6.9E-4)

9

Tat integrase matrix

KPNB1 RANBP5 TNPO1

Protein import into nucleus, docking (GO:0000059) (1.3E-3)

Nuclear pore (GO:0005643) (6.2E-3)

Nuclear localization sequence binding (GO:0008139) (5.4E-4)

Not found

10

Rev Tat matrix

MAPK1 MAPK3 PRKCA UBB UBC UBD

Regulation ofsynaptogenesis(GO:0051963) (1.7E-5)

Cytosol (GO:0005829)(1.2E-4)

MAP kinase activity (GO:0004707) (4.3E-3)

Aldosterone-regulated sodium reabsorption (6.3E-5)

11

Nef env_gp120 env_gp160

CD4 ITGAL ICAM1 HLA-DRB1 PRKCQ LCK

T cell activation (GO:0006468) (7.8E-6)

Plasma membrane part (GO:0044459) (1.5E-4)

Glycoprotein binding (GO:0001948) (1.4E-2)

Cell adhesion molecules (CAMs) (1.6E-4)

12

Tat capsid env_gp120

IFNG CD3D CD3E CD3G

T cell activation (GO:0042110) (2.6E-4)

Alpha-beta T cell recep- tor complex (GO:0042105) (2.2E-7)

T cell receptor binding (GO:0042608) (6.9E-4)

T cell receptor signaling pathway (9.3E-6)

13

Nef env_gp120 env_gp41

CXCR4 CD4

Initiation of viral infection (GO:0019059) (1.6E-3)

Not found

Coreceptor activity (GO:0015026) (1.5E-3)

Not found

14

Nef Tat env_gp120

TP53 ICAM1

T cell activation during immune response (GO:0002286) (9.6E-4)

Not found

Not found

Not found

15

Nef Tat Vpr

CDK9 TP53

Transcription,DNA-dependent(GO:0006351) (2.2E-2)

Nucleoplasm part (GO:0044451) (4.3E-2)

Not found

Not found

16

Nef RT Tat

PRKCA TP53

Induction of apoptosis by intracellular signals (GO:0008629) (4.0E-3)

Nsoluble fraction (GO:0005626) (6.6E-2)

Not found

Non-small cell lung cancer (1.1E-2)

17

Tat env_gp120 env_gp160

CD28 ICAM1

Regulation of immune effector process (GO:0002697) (7.5E-3)

External side of plasma membrane (GO:0009897) (1.3E-2)

 

Viral myocarditis (1.4E2)

18

Tat Vpr env_gp120

TP53 NFKB1

Regulation of specific transcription from RNA polymerase II promote(GO:0006357)(6.9E-3)

Nucleoplasm (GO:0005654) (3.3E-4)

Promoter binding (GO:0010843) (4.4E-3)

Pancreatic cancer (1.4E-2)

19

Tat env_gp120 env_gp41

CCL5 IFNG

Leukocyte chemotaxis (GO:0030595) (2.7E-3)

Extracellular space (GO:0005615) (5.4E-2)

Cytokine activity (GO:0005125) (1.5E-2)

Cytokine-cytokinereceptor interaction (5.2E-2)