Full-Length Enrich c-DNA Libraries-Clear Cell-Renal Cell Carcinoma

Table 2

Top 5 functional networks of 383 differentially expressed genes in ccRCC.

1	ANXA1, ANXA2, ARL6IP1, BRD2, CTSB, DBI, FBL, HNRPU, LAMP2, LDHA, LGMN, MAZ, MIF, MYC, NAP1L1, NDRG1, NPM1 (includes EG: 4869), PABPC1, PCBP2, PGK1, PRDX1, PRMT1, PTBP1, RBMS1, RPL7, RPL22, RPL26, RPL35, RPS3A, RPS4X, SERINC3, SPP1, SUCLA2, TAGLN2, TMSB4X	55	35	Protein synthesis, cellular assembly and organization, cancer
2	14-3-3, ALDOC, CCNB1, CCNE1, CD74, COL1A2, CTSS, CXCR4, DYRK1A, E3 RING, FBXO18,   H3F3A (includes EG: 3020), Histone h3, Hsp70, Hsp90, HSP90AB1, MAP3K2, MGMT, MLL, NME1, NOS3, PGAM1, PRMT5, PTGES3 (includes EG: 10728), RNA polymerase II, SAP18, SET, SKP1A, SMARCE1 (includes EG: 6605), SNRPD2, ST13, TCEB2, VHL, VIM, YWHAE	40	29	Cancer, cell cycle, cellular compromise
3	AGT, Akt, ANXA7, ATF6, BCL2, CA2, CALM1, Calmodulin, CANX, Ck2, CSF1R, DUSP1, EGFR, EGR1, ENPEP, GRB10, HSPD1, KNG1 (includes EG: 3827), LGALS1, LGALS3, LTF, Mapk, MET, MHC Class I, P38 MAPK, PIGR, PMP22, Ras, RTN4, SNX4, SQSTM1, SRI, STAT1, WT1, XBP1	37	28	Cellular development, cellular growth and proliferation, connective tissue development and function
4	Ap1, ARF1, ARFIP2, ATF4, CCND1, CCND3, Creb, Cyclin D, DDX5, EID1, Fibrin, ID2, IGF2, Igfbp, IGFBP2, IGFBP3, KLK5 (includes EG: 25818), Mmp, MMP2, MMP7, MMP24, PCK1, PCK2, PCNA, PEPCK, PLG, Rb, RFC1, SERPINA1, SPARC, SRA1 (includes EG: 10011), TIMP3, Vegf, VEGFA, VTN	33	26	Cancer, cellular movement, reproductive system disease
5	ANGPTL4, ASS1, BNIP3L, ELA2, EREG, ESM1, F10, GPX4, HADHA, HADHB, HGF, HIF1A, HNF4A, HSPA5, IFITM3, IGF2, IGFBP3, LIPA, MET, MMP2, NOS3, NR2F1,  PHC2, PKM2, PLAUR, POGZ, RNF4, SLC16A4, SLC2A1, SP1, TERT, TFPI2, TRPS1, Vegf, VEGFA	20	19	Cancer, tumor morphology, cardiovascular system development and function

The score represents the negative log of 𝑃 value that indicates the likelihood of the focus genes in a network being found together due to chance. The number of focus genes reflects number of the differentially expressed genes of ccRCC in a network generated by IPA. (Bold): upregulated genes in ccRCC. (Bold and italic): downregulated genes in ccRCC. (Italic): group or complex. (Standard text): nonfocus genes not included in the 383 differentially expressed genes of ccRCC.