Table 1.
List of loci of the differential transcriptome map between whole normal thyroid (Pool A) and histologically normal thyroid adjacent to papillary thyroid carcinoma (Pool B). Loci are sorted in descending order of expression ratio (Ratio A/B). Chr: chromosome. SD: standard deviation. N/A: not available in the “NCBI Gene” database (http://www.ncbi.nlm.nih.gov/gene) when the analysis was performed.
| Gene name | Chr | Location | Value A | Value B | Ratio A/B | Data Points A | Data Points B | SD as % of Expression A | SD as % of Expression B |
|---|---|---|---|---|---|---|---|---|---|
| Gene expression ratio >100 | |||||||||
| HTN3 | chr4 | 4q13.3 | 1,876.98 | 5.20 | 360.91 | 25 | 40 | 130.02 | 10.20 |
| STATH | chr4 | 4q13.3 | 2,224.34 | 6.86 | 324.27 | 33 | 40 | 150.28 | 30.81 |
| HTN1 | chr4 | 4q13.3 | 2,039.62 | 8.47 | 240.67 | 31 | 40 | 155.53 | 48.36 |
| SMR3B | chr4 | 4q13.3 | 1,444.86 | 11.22 | 128.73 | 28 | 40 | 137.51 | 56.34 |
| ZG16B | chr16 | 16p13.3 | 1,779.84 | 15.31 | 116.25 | 16 | 40 | 110.20 | 58.66 |
| Gene expression ratio >10 and <100 | |||||||||
| LINC01521 | chr22 | 22q12.2 | 1,034.91 | 11.42 | 90.65 | 15 | 40 | 260.89 | 77.62 |
| PTH | chr11 | 11p15.3 | 343.99 | 5.10 | 67.45 | 38 | 40 | 126.93 | 24.13 |
| MUC7 | chr4 | 4q13.3 | 495.47 | 8.58 | 57.72 | 53 | 80 | 260.31 | 54.80 |
| NACA2 | chr17 | 17q23.2 | 544.38 | 9.80 | 55.53 | 29 | 40 | 143.02 | 79.12 |
| PRH1 | chr12 | 12p13.2 | 1,346.40 | 26.14 | 51.51 | 40 | 80 | 183.58 | 77.46 |
| HBD | chr11 | 11p15.4 | 1,016.65 | 21.48 | 47.33 | 49 | 40 | 210.97 | 54.06 |
| SMR3A | chr4 | 4q13.3 | 318.57 | 7.86 | 40.53 | 40 | 80 | 220.10 | 33.07 |
| KRT13 | chr17 | 17q21.2 | 332.61 | 9.54 | 34.86 | 30 | 40 | 478.35 | 40.15 |
| LINC01234 | chr12 | 12q24.13 | 214.17 | 6.52 | 32.85 | 24 | 80 | 325.50 | 31.97 |
| CST4 | chr20 | 20p11.21 | 791.16 | 31.20 | 25.35 | 21 | 40 | 191.60 | 29.20 |
| FOXM1 | chr12 | 12p13.33 | 291.00 | 13.33 | 21.82 | 33 | 40 | 395.21 | 29.83 |
| CST1 | chr20 | 20p11.21 | 206.18 | 9.48 | 21.74 | 31 | 40 | 208.13 | 30.56 |
| MGC16025 | chr2 | 2q37.3 | 149.46 | 7.63 | 19.59 | 15 | 40 | 245.74 | 35.23 |
| GBP4 | chr1 | 1p22.2 | 542.60 | 28.00 | 19.38 | 39 | 80 | 408.89 | 59.18 |
| TAS2R1 | chr5 | 5p15.31 | 350.21 | 18.07 | 19.38 | 31 | 40 | 408.60 | 21.54 |
| HCAR3 | chr12 | 12q24.31 | 285.79 | 15.54 | 18.39 | 22 | 40 | 309.92 | 55.06 |
| GABRD | chr1 | 1p36.33 | 278.26 | 15.72 | 17.70 | 47 | 80 | 475.42 | 54.59 |
| PPIAL4A | chr1 | 1p11.2 | 104.49 | 6.03 | 17.34 | 21 | 40 | 231.22 | 44.18 |
| LINC02078 | chr17 | 17q25.3 | 170.77 | 10.00 | 17.08 | 13 | 40 | 227.57 | 31.84 |
| BPIFB2 | chr20 | 20q11.21 | 290.54 | 17.27 | 16.82 | 26 | 40 | 275.56 | 35.69 |
| Hs.649237 | chr16 | N/A | 393.84 | 24.42 | 16.13 | 11 | 40 | 41.67 | 64.68 |
| PIP | chr7 | 7q34 | 360.81 | 22.48 | 16.05 | 35 | 40 | 187.82 | 49.66 |
| AKAP6 | chr14 | 14q12 | 191.95 | 12.63 | 15.20 | 51 | 80 | 650.30 | 48.25 |
| RHOC | chr1 | 1p13.2 | 180.95 | 13.47 | 13.44 | 24 | 40 | 103.28 | 35.67 |
| CCDC103 | chr17 | 17q21.31 | 463.69 | 34.98 | 13.26 | 13 | 40 | 231.41 | 20.32 |
| CRCT1 | chr1 | 1q21.3 | 92.27 | 7.04 | 13.10 | 31 | 40 | 493.70 | 29.20 |
| SBSN | chr19 | 19q13.12 | 187.27 | 14.41 | 13.00 | 22 | 40 | 414.04 | 53.84 |
| NPHS2 | chr1 | 1q25.2 | 275.83 | 21.32 | 12.93 | 31 | 40 | 382.71 | 63.61 |
| KRT6A | chr12 | 12q13.13 | 105.18 | 8.35 | 12.60 | 50 | 80 | 576.30 | 55.43 |
| BPIFA2 | chr20 | 20q11.21 | 236.54 | 18.92 | 12.50 | 26 | 40 | 133.55 | 48.56 |
| AGXT | chr2 | 2q37.3 | 132.65 | 10.75 | 12.34 | 73 | 120 | 548.67 | 44.40 |
| CNFN | chr19 | 19q13.2 | 165.81 | 13.79 | 12.02 | 26 | 40 | 355.33 | 18.49 |
| CRISP3 | chr6 | 6p12.3 | 63.55 | 5.30 | 11.98 | 33 | 40 | 158.98 | 20.82 |
| CEP19 | chr3 | 3q29 | 277.20 | 23.20 | 11.95 | 45 | 80 | 348.49 | 62.90 |
| KLF8 | chrX | Xp11.21 | 290.06 | 24.35 | 11.91 | 47 | 80 | 473.99 | 83.04 |
| PLA2G1B | chr12 | 12q24.31 | 93.86 | 7.99 | 11.74 | 35 | 40 | 153.96 | 38.29 |
| KIR3DX1 | chr19 | 19q13.42 | 190.23 | 16.53 | 11.51 | 53 | 80 | 446.28 | 61.41 |
| PSORS1C1 | chr6 | 6p21.33 | 154.59 | 13.49 | 11.46 | 23 | 40 | 301.22 | 22.86 |
| KRT4 | chr12 | 12q13.13 | 191.37 | 16.96 | 11.28 | 53 | 80 | 621.34 | 64.17 |
| ALPP | chr2 | 2q37.1 | 209.50 | 18.93 | 11.07 | 51 | 80 | 467.86 | 70.41 |
| SPRR3 | chr1 | 1q21.3 | 155.41 | 14.05 | 11.06 | 52 | 80 | 455.13 | 43.64 |
| PRR4 | chr12 | 12p13.2 | 233.81 | 21.42 | 10.92 | 33 | 40 | 169.40 | 26.73 |
| FOXL2 | chr3 | 3q22.3 | 99.01 | 9.25 | 10.70 | 33 | 40 | 211.90 | 53.22 |
| DMRTC2 | chr19 | 19q13.2 | 57.74 | 5.47 | 10.56 | 26 | 40 | 174.35 | 16.37 |
| DNMT3L | chr21 | 21q22.3 | 101.54 | 9.68 | 10.49 | 31 | 40 | 357.89 | 28.81 |
| POLE | chr12 | 12q24.33 | 328.71 | 31.44 | 10.46 | 49 | 40 | 417.34 | 25.33 |
| GALNT4 | chr12 | 12q21.33 | 376.31 | 36.31 | 10.36 | 36 | 80 | 411.01 | 74.50 |
| MTPN | chr7 | 7q33 | 256.91 | 24.88 | 10.33 | 26 | 40 | 127.05 | 38.70 |
| C9 | chr5 | 5p13.1 | 49.48 | 4.82 | 10.26 | 33 | 40 | 307.49 | 14.30 |
| GPR88 | chr1 | 1p21.2 | 53.33 | 5.25 | 10.17 | 33 | 40 | 249.83 | 13.38 |