Table A1.
Differentially expressed genes in idiopathic pulmonary fibrosis (IPF) fibroblasts treated with epigallocatechin gallate (EGCG) versus water (control).
| Official Gene Symbol | FPKM | Ratio (EGCG/Control) |
Log2(ratio) | p-Value | q-Value * | |
|---|---|---|---|---|---|---|
| EGCG | Control | |||||
| PCSK9 | 0.85 | 0.09 | 9.65 | 3.27 | 0.0003 | 0.0846 |
| HMGCS1 | 441.43 | 57.81 | 7.64 | 2.93 | 0.0001 | 0.0268 |
| BTBD7 | 7.42 | 1.07 | 6.96 | 2.80 | 0.0001 | 0.0268 |
| CTIF | 5.12 | 0.89 | 5.75 | 2.52 | 0.0003 | 0.0846 |
| FAM120B | 2.44 | 0.43 | 5.64 | 2.50 | 0.0007 | 0.1650 |
| PLA2G3 | 1.29 | 0.24 | 5.29 | 2.40 | 0.0005 | 0.1250 |
| FABP3 | 117.28 | 23.12 | 5.07 | 2.34 | 0.0001 | 0.0268 |
| VPS53 | 10.80 | 2.16 | 4.99 | 2.32 | 0.0001 | 0.0268 |
| HSPB3 | 5.34 | 1.12 | 4.76 | 2.25 | 0.0011 | 0.2481 |
| MVD | 96.80 | 22.27 | 4.35 | 2.12 | 0.0001 | 0.0268 |
| TMEM97 | 140.13 | 32.98 | 4.25 | 2.09 | 0.0001 | 0.0268 |
| MSMO1 | 224.89 | 55.13 | 4.08 | 2.03 | 0.0001 | 0.0268 |
| HMGCR | 136.04 | 34.55 | 3.94 | 1.98 | 0.0001 | 0.0268 |
| ARHGEF5 | 3.48 | 0.90 | 3.86 | 1.95 | 0.0001 | 0.0268 |
| HSD17B7 | 11.98 | 3.12 | 3.85 | 1.94 | 0.0003 | 0.0973 |
| PALMD | 3.68 | 0.96 | 3.82 | 1.93 | 0.0004 | 0.1047 |
| DHCR7 | 84.31 | 22.39 | 3.76 | 1.91 | 0.0001 | 0.0268 |
| IDI1 | 185.79 | 51.74 | 3.59 | 1.84 | 0.0003 | 0.0846 |
| CYP51A1 | 329.34 | 94.32 | 3.49 | 1.80 | 0.0001 | 0.0268 |
| ACSS2 | 25.91 | 7.69 | 3.37 | 1.75 | 0.0001 | 0.0268 |
| DMKN | 2.32 | 0.71 | 3.28 | 1.71 | 0.0001 | 0.0268 |
| SLC40A1 | 7.87 | 2.43 | 3.24 | 1.70 | 0.0003 | 0.0846 |
| SQLE | 108.28 | 34.77 | 3.11 | 1.64 | 0.0001 | 0.0268 |
| FBXO32 | 5.71 | 1.85 | 3.08 | 1.62 | 0.0005 | 0.1319 |
| FDFT1 | 206.04 | 69.04 | 2.98 | 1.58 | 0.0001 | 0.0268 |
| BIRC3 | 12.03 | 4.07 | 2.95 | 1.56 | 0.0003 | 0.0973 |
| RRAD | 4.19 | 1.43 | 2.94 | 1.55 | 0.0010 | 0.2174 |
| ITGB8 | 6.31 | 2.17 | 2.91 | 1.54 | 0.0001 | 0.0486 |
| FDPS | 260.06 | 91.77 | 2.83 | 1.50 | 0.0001 | 0.0268 |
| SCD | 377.97 | 134.01 | 2.82 | 1.50 | 0.0001 | 0.0486 |
| INSIG1 | 268.58 | 95.40 | 2.82 | 1.49 | 0.0001 | 0.0268 |
| LSS | 129.93 | 46.81 | 2.78 | 1.47 | 0.0002 | 0.0798 |
| LBH | 128.19 | 46.39 | 2.76 | 1.47 | 0.0001 | 0.0268 |
| RPS17 | 60.77 | 22.54 | 2.70 | 1.43 | 0.0004 | 0.1047 |
| NTN4 | 12.06 | 4.72 | 2.56 | 1.35 | 0.0005 | 0.1319 |
| CEMIP | 216.43 | 85.86 | 2.52 | 1.33 | 0.0005 | 0.1250 |
| LMOD1 | 15.53 | 6.33 | 2.46 | 1.30 | 0.0001 | 0.0268 |
| NSDHL | 53.96 | 22.04 | 2.45 | 1.29 | 0.0001 | 0.0486 |
| SC5D | 93.06 | 38.02 | 2.45 | 1.29 | 0.0003 | 0.0846 |
| GABARAPL1 | 20.49 | 8.74 | 2.34 | 1.23 | 0.0002 | 0.0798 |
| FRY | 6.83 | 3.06 | 2.23 | 1.16 | 0.0003 | 0.0846 |
| PDE5A | 278.27 | 125.88 | 2.21 | 1.14 | 0.0007 | 0.1556 |
| BHLHE40 | 16.48 | 7.50 | 2.20 | 1.13 | 0.0006 | 0.1482 |
| QPRT | 12.85 | 5.85 | 2.20 | 1.13 | 0.0005 | 0.1250 |
| DHCR24 | 151.61 | 73.96 | 2.05 | 1.04 | 0.0008 | 0.1742 |
| SEMA7A | 26.51 | 54.97 | 0.48 | -1.05 | 0.0004 | 0.1174 |
| MT2A | 352.79 | 738.65 | 0.48 | -1.07 | 0.0004 | 0.1047 |
| EGR1 | 17.36 | 36.40 | 0.48 | -1.07 | 0.0006 | 0.1426 |
| STC1 | 41.69 | 87.70 | 0.48 | -1.07 | 0.0007 | 0.1556 |
| SERPINB2 | 131.57 | 286.07 | 0.46 | -1.12 | 0.0002 | 0.0798 |
| PLXNA4 | 2.83 | 7.07 | 0.40 | -1.32 | 0.0005 | 0.1319 |
| SQSTM1 | 11.91 | 36.40 | 0.33 | -1.61 | 0.0001 | 0.0268 |
| SORBS2 | 0.12 | 0.41 | 0.30 | -1.73 | 0.0004 | 0.1047 |
| ESM1 | 10.28 | 45.34 | 0.23 | -2.14 | 0.0001 | 0.0268 |
| THBD | 3.13 | 14.37 | 0.22 | -2.20 | 0.0001 | 0.0268 |
| MYLIP | 0.61 | 2.91 | 0.21 | -2.24 | 0.0006 | 0.1482 |
| RGPD6 | 0.57 | 2.99 | 0.19 | -2.38 | 0.0002 | 0.0798 |
| TOP3A | 0.42 | 2.21 | 0.19 | -2.40 | 0.0002 | 0.0798 |
| ABCA1 | 2.09 | 13.21 | 0.16 | -2.66 | 0.0001 | 0.0268 |
| IVL | 0.13 | 1.03 | 0.12 | -3.01 | 0.0001 | 0.0268 |
| ITPK1 | 0.85 | 7.50 | 0.11 | -3.14 | 0.0001 | 0.0268 |
* p-values adjusted with false discovery rate using the method by Benjamini et al. IPF, idiopathic pulmonary fibrosis; EGCG, epigallocatechin gallate; FPKM, fragments per kilobase of transcript per million mapped reads.