Table 4.
Selected differentially expressed chromatin modifying enzymes and proteins in bladder cancer 5637 cells in response to treatment with the heat shock protein 90 inhibitors AUY922 and ganetespib (STA9090).
| Accession no. | Protein description | Symbol | Complex | Protein function | Protein level (ppm) | ||
|---|---|---|---|---|---|---|---|
| Untreated | AUY922 | STA9090 | |||||
| 2498443 | Histone deacetylase 1 | HDAC1 | Mi-2/NuRD; CoREST; Sin3 | Lysine deacetylase | 374.75 | 163.45 | 235.90 |
| 68068066 | Histone deacetylase 2 | HDAC2 | Mi-2/NuRD; CoREST; Sin3 | Lysine deacetylase | 421.20 | 174.35 | 305.81 |
| 3334210 | Histone deacetylase 3 | HDAC3 | Mi-2/NuRD; NcoR/SMRT | Lysine deacetylase | 87.32 | 29.45 | 33.21 |
| 38258651 | NAD-dependent protein deacetylase sirtuin-3 | SIRT3 | HDAC | Lysine deacetylase | 23.42 | 15.80 | 0 |
| 3334209 | Histone acetyltransferase type B catalytic subunit | HAT1 | KATs | Lysine acetyltransferase | 52.03 | 67.69 | 67.84 |
| 215274095 | Histone acetyltransferase KAT6A | KAT6A | KATs | Lysine acetyltransferase | 1.55 | 1.57 | 5.32 |
| 68565854 | Histone acetyltransferase KAT7 | KAT7 | KATs | Lysine acetyltransferase | 35.68 | 36.10 | 52.34 |
| 116241283 | CREB-binding protein | CREBBP | KATs | Lysine acetyltransferase | 0 | 2.58 | 1.46 |
| 51315808 | Lysine-specific histone demethylase 1A | KDM1A | CoREST | Lysine demethylase | 32.90 | 22.19 | 20.85 |
| 38257795 | Lysine-specific demethylase 2A | KDM2A | KDMs | Lysine demethylase | 29.48 | 10.85 | 3.06 |
| 134047803 | Lysine-specific demethylase 4B | KDM4B | KDMs | Lysine demethylase | 2.84 | 0 | 0 |
| 215274124 | Lysine-specific demethylase 5A | KDM5A | KDMs | Lysine demethylase | 0 | 1.87 | 6.31 |
| 215274229 | Lysine-specific demethylase PHF2 | PHF2 | ARID5B | Lysine demethylase | 11.50 | 19.89 | 51.87 |
| 325511404 | Histone-lysine N-methyl-transferase EHMT1 | EHMT1 | KMTs | Lysine methyltransferase | 35.99 | 7.28 | 35.59 |
| 116241348 | Histone-lysine N-methyl-transferase EHMT2 | EHMT2 | KMTs | Lysine methyltransferase | 23.16 | 7.81 | 46.99 |
| 146345435 | Histone-lysine N-methyl-transferase 2A | KMT2A | KMTs | Lysine methyltransferase | 0.79 | 0 | 10.74 |
| 25091290 | Histone-lysine N-methyl-transferase SUV39H1 | SUV39H1 | KMTs | Lysine methyltransferase | 30.24 | 45.89 | 60.37 |
| 74727906 | Histone-lysine N-methyl-transferase SUV420H2 | SUV420H2 | KMTs | Lysine methyltransferase | 13.48 | 0 | 0 |
| 296452963 | Histone-lysine N-methyl-transferase SETD2 | SETD2 | KMTs | Lysine methyltransferase | 1.22 | 0 | 0 |
| 32469769 | Histone-lysine N-methyl-transferase NSD1 | NSD1 | KMTs | Lysine methyltransferase | 0 | 0 | 1.32 |
| 25090171 | Histone-lysine N-methyl-transferase DOT1L | DOT1L | KMTs | Lysine methyltransferase | 1.79 | 0 | 0 |
| 3334180 | Histone-lysine N-methyl-transferase EZH2 | EZH2 | PRC2/EED-EZH2 | Lysine methyltransferase | 12.52 | 8.45 | 28.58 |
| 209572723 | SWI/SNF complex subunit SMARCC1 | SMARCC1 | SWI/SNF | Chromatin remodeling | 191.65 | 88.41 | 115.76 |
| 238054318 | SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 1 | SMARCD1 | SWI/SNF | Chromatin remodeling | 120.94 | 79.55 | 103.49 |
| 322510105 | SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily D member 2 | SMARCD2 | SWI/SNF | Chromatin remodeling | 93.84 | 77.15 | 80.30 |
| 23396463 | Actin-like protein 6A | ACTL6A | SWI/SNF | Chromatin remodeling | 319.42 | 198.33 | 140.81 |
| 88911273 | Chromodomain-helicase-DNA-binding protein 3 | CHD3 | Mi-2/NuRD | Chromatin remodeling | 28.03 | 9.45 | 23.10 |
| 311033360 | Chromodomain-helicase-DNA-binding protein 4 | CHD4 | Mi-2/NuRD | Chromatin remodeling | 263.87 | 85.70 | 120.80 |
| 1172846 | Histone-binding protein RBBP4 | RBBP4 | Mi-2/NuRD; Sin3 | Histone-binding protein | 300.44 | 163.13 | 200.65 |
| 2494891 | Histone-binding protein RBBP7 | RBBP7 | Mi-2/NuRD; Sin3 | Histone-binding protein | 315.09 | 185.37 | 234.10 |
| 226693612 | F-box-like/WD repeat-containing protein TBL1X | TBL1X | N-CoR/SMRT | Transcription activation | 10.79 | 5.46 | 12.32 |
| 23396874 | F-box-like/WD repeat-containing protein TBL1XR1 | TBL1XR1 | N-CoR/SMRT | Transcription activation | 66.65 | 12.26 | 41.48 |
| 84029319 | Transcriptional regulator Kaiso | ZBTB33 | N-CoR/SMRT | Transcriptional regulator | 9.27 | 4.69 | 0 |
| 226713806 | Nuclear receptor corepressor 2 | NCOR2 | N-CoR/SMRT | Corepressor | 6.17 | 0 | 0 |
| 6226623 | G protein pathway suppressor 2 | GPS2 | N-CoR/SMRT | Repressor | 9.52 | 0 | 0 |
| 74717977 | Histone deacetylase complex subunit SAP130 | SP130 | Sin3 | Repressor | 17.83 | 0 | 3.39 |
| 68053233 | Sin3 histone deacetylase corepressor complex component SDS3 | SDS3 | Sin3 | Corepressor | 37.98 | 0 | 21.67 |
| 37999759 | Paired amphipathic helix protein Sin3a | SIN3A | Sin3 | Repressor | 88.07 | 17.33 | 86.53 |
| 68053233 | Sin3 histone deacetylase corepressor complex component SDS3 | SUDS3 | Sin3 | Repressor | 37.98 | 0 | 21.67 |
| 6831678 | Histone deacetylase complex subunit SAP18 | SAP18 | Sin3 | Corepressor | 81.42 | 82.39 | 69.67 |
| 212276438 | Inhibitor of growth protein 1 | ING1 | Sin3 | Tumor suppressor | 14.76 | 0 | 8.42 |
| 74762776 | REST corepressor 1 | RCOR1 | CoREST | Corepressor | 25.85 | 0 | 0 |
| 6014741 | C-terminal-binding protein 1 | CTBP1 | CoREST | Corepressor | 106.17 | 21.49 | 16.15 |
| 50401198 | Methyl-CpG-binding domain protein 2 | MBD2 | Mi-2/NuRD | Repressor | 37.89 | 7.67 | 17.29 |
| 50400820 | Methyl-CpG-binding domain protein 3 | MBD3 | Mi-2/NuRD | Repressor | 10.70 | 0 | 0 |
| 259016275 | Metastasis-associated protein MTA1 | MTA1 | Mi-2/NuRD | Coactivator and corepressor | 174.23 | 35.26 | 69.57 |
| 29840793 | Metastasis-associated protein MTA2 | MTA2 | Mi-2/NuRD | Activator and repressor | 400.94 | 108.50 | 202.13 |
| 29840798 | Metastasis-associated protein MTA3 | MTA3 | Mi-2/NuRD | Corepressor | 110.10 | 15.92 | 11.96 |