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Table 3 The highest G-score networks and corresponding processes identified using MetaCore [50]

From: Identification of the Eph receptor pathway as a novel target for eicosapentaenoic acid (EPA) modification of gene expression in human colon adenocarcinoma cells (HT-29)

Networks

GO Processes‡

Significantly changed genes involved

p-value

G-score

Ephrin-B receptors,

Ephrin-A receptors,

Connexin 32,

Twinfilin,

FXR1/2

cell projection organization and biogenesis (43.8%; 1.652e-19)

cell projection morphogenesis (43.8%; 1.723e-19)

cell part morphogenesis (43.8%; 1.723e-19)

cell morphogenesis (45.8%; 1.974e-18)

cellular structure morphogenesis (45.8%; 1.974e-18)

Receptors: Ephrin-B receptors ↑; Ephrin-B receptor 4 ↑; Ephrin-A receptors ↑

Regulators: Vav2 ↑

Binding Protein: Twinfillin ↓; Alpha Actin ↑

Channels: Connexin 32↑

Protein: FXR1/2 ↑; VAMP4 ↑

GTPase: CDC42 ↑

7.00e-11

91.44

FXR,

FXR/RXR-α,

GIPC,

SOX3,

Pitpnm (NIR2)

V(D)J recombination (6.8%; 5.712e-06)

response to stimulus (56.8%; 1.109e-05)

B cell homeostatic proliferation (4.5%; 2.286e-05)

organ morphogenesis (25.0%; 2.353e-05)

bile acid metabolic process (6.8%; 4.487e-05)

Transcription Factor: SOX3 ↑; TITF1 ↑↓; FXR ↑

Receptors: Syndecan-1 ↓

Binding Protein: Fetulin-A ↑; Pitpnm (NIR2) ↑↓; GIPC ↑; SYNE2 ↑; Actin ↑; RAD23A ↑↓

Channels: Kir3.3 ↑

Transporter: SLC6A6 ↑↓; Glut1 ↓

Protein: COQ4 ↑

Lipid Kinase: P3C2B ↑; PI3K class II ↑

3.08e-23

36.22

SET1A,

Autophagin-1,

ASNS,

ETV6(TEL1),

POP1 (RNase P/MRP subunit)

tRNA catabolic process (7.7%; 2.622e-06)

tRNA 5'-leader removal (7.7%; 7.859e-06)

ncRNA catabolic process (7.7%; 1.570e-05)

autophagy (11.5%; 2.111e-05)

intracellular transport (30.8%; 1.049e-04)

Transcription Factor: ETV6 (Tel1) ↑

Binding Protein: PEX3 ↑;FXR 2↑; Histone H2A ↑

Protease: Autophagin-1↑

Enzyme: GSHB ↑; ASNS ↑; Set1A ↑; POP1 (RNaseP/MRP subunit) ↑

Protein: ES1 ↑

1.66e-20

35.43

NF-kB,

Large 39 S subunit,

MRPL16,

2'-5'-oligoadenylate synthetase,

TIEG

response to UV (27.3%; 3.661e-10)

nucleotide-excision repair, DNA damage removal (18.2%; 3.547e-08)

nucleotide-excision repair, DNA incision (13.6%; 1.320e-07)

DNA catabolic process, endonucleolytic (13.6%; 1.978e-07)

response to light stimulus (27.3%; 2.314e-07)

Transcription Factor: TIEG ↑

Binding Protein: Fetulin-A ↑; MRPL16 ↓; MRPL37 ↓ XPA ↑; P21 ↑

Enzyme: 2'-5' oligoadenylate synthetase ↑

SULT1A1 ↑

Kinase: PRKX ↑

1.45e-17

35.39

  1. ‡ (% refers to objects on network belonging to process; p-value showing statistical significance of the GO process on that network)
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Nutrition & Metabolism

ISSN: 1743-7075

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