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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