Table 3 Differentially expressed genes between stage 1 and stage 2 groups (1-way ANOVA) and stage 1 versus all other stages (2-sample T-test) for 5 modules of interest.
Module | DEGs (stage 1 vs. stage 2) | DEGs (stage 1 vs. all other stages) | Up-/down-regulation | |
|---|---|---|---|---|
Turquoise | M1 | hsa-mir-3189, hsa-let-7D, hsa-mir-25, LINC00342, LINC00685, hsa-mir-186, hsa-mir-3682, CLUHP3 | hsa-mir-3189, NPIPB15, ZDHHC11B, hsa-let-7D, LINC00342, CLUHP3, LINC00685, hsa-mir-3682 | Down-regulated |
Brown | M3 | FAM83A, MYBL2, KIF4A, STC1, RRM2, DEPDC1, ANLN | FAM83A, STC1, ANLN, ELOVL6, LYPD3, RRM2, SLC2A1, MYBL2, KIF4A, CEP55, TNNT1, EXO1, TUBB3, HMMR, DEPDC1, MKI67, FOXM1 | Up-regulated |
Red | M6 | SCGB3A2, CYP4B1, CRYM, PIGR, WIF1, C4BPA, CYP2B7P, SFTPB, VSIG2, PRSS12, PLA2G10, CACNA2D2, ELAPOR1, DUOXA1, ZBTB7C, ALPL, CLIC6, HLF, FAM189A2, CYP4X1, DUOX1, CFAP221, C5orf49, CEBPA-DT, B3GNT8, ENTPD3, SCUBE2, OLFM1, ERICH2, WFDC2, PDZD2 | PGC, SFTPC, SCGB3A2, CYP4B1, CRYM, CYP2B7P, AQP5, SCGB3A1, PIGR, C4BPA, SFTPB, C16orf89, CLDN18, SFTPA2, DMBT1, CACNA2D2, WIF1, PRSS12, GGTLC1, SFTPA1, VSIG2, AQP4, SCGB1A1, TMEM130, HLF, LRRK2-DT, SFTPD, C8orf34-AS1, ATP13A4, AGER, FAM189A2, ALPL, ELAPOR1, SUSD2, CLIC6, RNASE1, CFAP221, CYP4X1, PLA2G10, NAPSA, PEBP4, SFTA3, CEBPA-DT, GGT6, HSD17B6, LMO3, IRX2, TDRD10, B3GNT8, SCTR, SPINK5, ESYT3, PLA2G1B, HABP2, SCUBE2, C5orf49, CFTR, WFDC2, GFRA3, DAPK2, MFSD4A, ZBTB7C, CPAMD8, FCGBP, ZNF750, KLF15, SUSD4 | Down-regulated |
Magenta | M9 | FDCSP, MS4A1, PTGDS, RAB37 | FDCSP, MS4A1, PTGDS, hsa-mir-8071-1 | Down-regulated |
Lightcyan | M16 | No significant DEGs | CD19, CD79A, CR2, IGHJ3P, IGHV3-63, IGLV10-54, IGHD, IGHM, IGHJ1, IGHV3-47, IGLC3, IGKV6D-21, IGKV1D-16, IGLV1-44, IGLC7, IGLV2-18, IGHV3-13, IGKV1-8, IGHV3-64, IGLV3-9, IGLV1-36, IGLV3-27, IGLV8-61 | NA |
