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Table 7 Enriched gene sets in RC-77 T/E and RC-77 N/E cell lines

From: Proteomic characterization of paired non-malignant and malignant African-American prostate epithelial cell lines distinguishes them by structural proteins

Pathway (Size)

NES

p-value

q-value

Proteins Contributing to Enrichment

KEGG: Tight Junction (16)

2.064

0.00E + 00

3.41E-03

alpha-actinin-1*, alpha-actinin-4*, alpha-catenin, beta-catenin*, casein kinase II subunit beta, myosin heavy chain-9*, Src substrate cortactin*

KEGG: Cell Adhesion Molecules (6)

−1.836

0.00E + 00

1.34E-02

CD166 antigen, integrin alpha-6, integrin beta-1

KEGG: Hippo Signaling Pathway (9)

1.797

3.98E-03

2.73E-02

alpha-catenin*, beta-catenin*, 14–3-3 protein beta/alpha, 14–3-3 protein theta, 14–3-3 protein zeta/delta

KEGG: Transcriptional Misregulation in Cancer (9)

1.733

1.54E-02

4.09E-02

high mobility group protein HMGI-C, junction plakoglobin*, protein PML, RNA-binding protein EWS, RNA-binding protein FUS

KEGG: Adherens Junction (12)

1.704

1.27E-02

4.87E-02

alpha-actinin-1*, alpha-actinin-4*, alpha-catenin*, beta-catenin*, epidermal growth factor receptor, casein kinase II subunit beta

BioCarta: ChREBP2 Pathway (7)

1.695

1.01E-02

8.11E-02

14–3-3 protein beta/alpha, 14–3-3 protein theta, 14–3-3 protein zeta/delta, fatty acid synthase

KEGG: Cell Cycle (9)

1.627

2.49E-02

9.07E-02

DNA-dependent protein kinase catalytic subunit, DNA replication licensing factor MCM6, 14–3-3 protein beta/alpha, 14–3-3 protein sigma, 14–3-3 protein theta, 14–3-3 protein zeta/delta,

KEGG: ECM-Receptor Interaction (8)

−1.557

6.09E-03

1.57E-01

CD44 antigen, integrin alpha-2, integrin alpha-3, integrin alpha-6, integrin beta-1, integrin beta-4, laminin subunit beta-3, laminin subunit gamma-2

KEGG: Small Cell Lung Cancer (7)

−1.488

5.20E-02

1.87E-01

integrin alpha-2, integrin alpha-3, integrin alpha-6, integrin beta-1, laminin subunit beta-3, laminin subunit gamma-2

KEGG: Complement and Coagulation Cascades (5)

−1.441

5.08E-02

2.02E-01

alpha-1-antitrypsin, alpha-2-macroglobulin, complement C3, CD59 glycoprotein, tissue factor

  1. Positive enrichment scores correspond to enrichment in RC-77 T/E samples. Negative enrichment scores correspond to enrichment in RC-77 N/E samples. Bolded proteins were differentially expressed (q < 0.1, Wilcoxon rank-sum test). *Carries a “Structural” or “Cytoskeletal” annotation in PANTHER. ChREBP2 carbohydrate responsive element binding protein, ECM extracellular matrix, KEGG Kyoto Encyclopedia of Genes and Genomes, NES normalized enrichment score (normalized to size of the pathway); p-value = probability of significance after permutation, q-value = false discovery rate-adjusted p-value; size = total number of genes in pathway
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BMC Cancer

ISSN: 1471-2407

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