Table 2.
Microarray analysis reveals gene expression changes induced by 6bE5.
| (A) Top 25 genes (by fold change) downregulated by 6bE5 in keratinocytes. Around 600 genes were downregulated (>1.5 fold in each array, p < 0.01) in 6bE5‐expressing cells as compared to LXSN‐expressing cells. | |||
|---|---|---|---|
| Primary sequence name | Accession # | p Value | Fold change |
| C1orf135 | NM_024037 | 0.00 | −13.90 |
| C9orf94 | NM_152702 | 0.01 | −12.87 |
| CDKN2C | NM_001262 | 0.00 | −11.95 |
| XPOT | NM_007235 | 0.00 | −10.38 |
| NRG1 | NM_013962 | 0.00 | −9.99 |
| LETM2 | NM_144652 | 0.00 | −9.86 |
| KRR1 | NM_007043 | 0.00 | −9.75 |
| BM850706 | BM850706 | 0.00 | −9.66 |
| C12orf24 | NM_013300 | 0.00 | −9.62 |
| RRM2 | NM_001034 | 0.00 | −9.45 |
| EIF2S1 | NM_004094 | 0.00 | −9.42 |
| KIAA0114 | CR611723 | 0.00 | −9.25 |
| WIBG | BC009627 | 0.00 | −9.24 |
| PRR15 | NM_175887 | 0.00 | −8.96 |
| LBR | AJ381562 | 0.00 | −8.84 |
| FAM54A | NM_138419 | 0.00 | −8.54 |
| PTPN2 | NM_002828 | 0.01 | −8.53 |
| TOP2A | NM_001067 | 0.00 | −8.42 |
| ANLN | NM_018685 | 0.00 | −8.35 |
| DNAH11 | NM_003777 | 0.00 | −8.34 |
| MED26 | BC030138 | 0.00 | −8.28 |
| THC2272132 | THC2272132 | 0.00 | −8.10 |
| SPC25 | NM_020675 | 0.00 | −7.87 |
| LRP8 | NM_033300 | 0.00 | −7.80 |
| CCBL2 | NM_019610 | 0.00 | −7.76 |
| (B) Top 25 genes (by fold change) upregulated by 6bE5 in keratinocytes. Around 160 genes were upregulated (>1.5 fold in each array, p < 0.01) in 6bE5‐expressing cells as compared to LXSN‐expressing cells. | |||
|---|---|---|---|
| Primary sequence name | Accession # | p Value | Fold change |
| TNFSF10 | NM_003810 | 0.00 | 3.97 |
| FER1L4 | NR_001442 | 0.00 | 4.10 |
| CTSS | NM_004079 | 0.00 | 4.20 |
| TNFSF10 | BM978417 | 0.00 | 4.29 |
| C3 | NM‐000064 | 0.00 | 4.31 |
| SOD2 | AA970543 | 0.00 | 4.32 |
| GPNMB | NM_001005340 | 0.00 | 4.41 |
| LTB | NM_002341 | 0.00 | 4.87 |
| KYNU | NM_003937 | 0.00 | 5.01 |
| DCN | NM_001920 | 0.00 | 5.30 |
| LOX | NM_002317 | 0.00 | 5.36 |
| PGLYRP4 | NM_020393 | 0.00 | 5.60 |
| TNFSF10 | NM_000594 | 0.00 | 5.76 |
| C10ORF10 | NM_007021 | 0.00 | 6.11 |
| FBXO32 | NM_058229 | 0.00 | 6.55 |
| YPEL4 | NM_145008 | 0.00 | 6.68 |
| MMP9 | NM_004994 | 0.00 | 8.53 |
| LOC387763 | BC052560 | 0.00 | 8.78 |
| PLA2G4C | NM_003706 | 0.00 | 8.79 |
| MB2 | AF100640 | 0.00 | 9.58 |
| ICAM1 | NM_000201 | 0.00 | 10.55 |
| SERPINA3 | NM_001085 | 0.00 | 11.93 |
| LOC57400 | AF264627 | 0.00 | 49.09 |
| LOC57398 | AF264621 | 0.00 | 105.05 |
| drug‐sensitive protein 1 | AY227436 | 0.00 | 326.09 |
| (C) Genes were classified according to enriched gene ontology terms. | |||
|---|---|---|---|
| GO Class ID | Definitions | Counts | Fractions |
| GO:0008152 | Metabolism | 42 | 17.10% |
| GO:0007049 | Cell cycle | 33 | 13.40% |
| GO:0006139 | Nucleobase, nucleoside, nucleotide and nucleic acid metablism | 30 | 12.20% |
| GO:0016043 | Cell organization and biogenesis | 22 | 8.90% |
| GO:0006996 | Organelle organization and biogenesis | 19 | 7.70% |
| GO:0006259 | DNA metabolism | 16 | 6.50% |
| GO:0006950 | Response to stress | 15 | 6.10% |
| GO:0009058 | Biosynthesis | 7 | 2.90% |
| GO:0006810 | Transport | 7 | 2.90% |
| GO:0007275 | Development | 7 | 2.90% |
| GO:0009605 | Response to external stimulus | 5 | 2.00% |
| GO:0007165 | Signal transduction | 5 | 2.00% |
| GO:0030154 | Cell differentiation | 5 | 2.00% |
| GO:0007154 | Cell communicaton | 5 | 2.00% |
| GO:0007010 | Cytoskeleton organization and biogenesis | 5 | 2.00% |
| GO:0000003 | Reproduction | 4 | 1.60% |
| GO:0019725 | Cell homestasis | 3 | 1.20% |
| GO:0009653 | Morphogenesis | 3 | 1.20% |
| GO:0009056 | Catabolism | 3 | 1.20% |
| GO:0008283 | Cell proleferation | 2 | 0.80% |
| GO:0006519 | Amino acid and derivative metabolism | 2 | 0.80% |
| GO:0006811 | Ion transport | 2 | 0.40% |
| GO:0015031 | Protein transport | 1 | 0.40% |
| GO:0006464 | Protein modification | 1 | 0.40% |
| GO:0019538 | Protein metablism | 1 | 0.40% |
| GO:0006350 | Transcription | 1 | 0.40% |
| Total | 246 | 100.00% | |
Note: Microarray was performed on three different donor pools of primary foreskin keratinocytes which were stably transduced with 6bE5 or LXSN. Dye swap was performed for each replicate. (A) Top 25 genes (by fold change) downregulated by 6bE5 in keratinocytes. Around 600 genes were downregulated (>1.5 fold in each array, p < 0.01) in 6bE5‐expressing cells as compared to LXSN‐expressing cells. (B) Top 25 genes (by fold change) upregulated by 6bE5 in keratinocytes. Around 160 genes were upregulated (>1.5 fold in each array, p < 0.01) in 6bE5‐expressing cells as compared to LXSN‐expressing cells. (C) Genes were classified according to enriched gene ontology terms. Significantly represented (p < 0.01) biological processes are shown.