Table 1 Most consistently dysregulated chromosome 21 genes based on their p-values from ANOVA and after 5% false discovery rate cut-off
From: Primary and secondary transcriptional effects in the developing human Down syndrome brain and heart
Gene name | Accession number | Chromosome number | p value (ANOVA) | Cerebrum | Cerebellum | Astrocyte | Heart | ||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Â | Â | Â | Â | Control | TS21 | Control | TS21 | Control | TS21 | Control | TS21 |
Pituitary tumor-transforming 1 interacting protein (PTTG1IP) | NM_004339 | 21 | 1.50E-07 | 582.6 | 888.1 | 830.9 | 1176.9 | 2355.5 | 3896.0 | 1153.0 | 2003.5 |
ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit (ATP5O) | NM_001697 | 21 | 5.11E-07 | 1509.0 | 2553.5 | 1331.5 | 2327.1 | 1552.9 | 2086.3 | 2375.0 | 4002.1 |
SH3 domain binding glutamic acid-rich protein (SH3BGR) | NM_007341 | 21 | 7.12E-07 | 20.5 | 44.5 | 21.2 | 48.4 | 38.2 | 130.2 | 606.8 | 1937.5 |
ATP synthase, H+ transporting, mitochondrial F0 complex, subunit F6 (ATP5J) | NM_001685 | 21 | 2.47E-06 | 624.4 | 1148.8 | 723.1 | 1013.6 | 881.3 | 1331.5 | 916.4 | 2046.7 |
Down syndrome critical region gene 3 (DSCR3) | NM_006052 | 21 | 1.44E-05 | 51.7 | 94.3 | 49.8 | 92.6 | 49.7 | 169.0 | 72.9 | 71.1 |
Chromosome 21 segment HS21C048, zinc finger protein 294 (ZNF294) | NM_015565 | 21 | 3.39E-05 | 165.7 | 283.0 | 161.6 | 228.9 | 78.6 | 127.8 | 107.5 | 178.0 |
Superoxide dismutase 1 (SOD1) | NM_000454 | 21 | 5.62E-05 | 1176.2 | 2493.4 | 1816.7 | 2860.4 | 2482.7 | 3853.6 | 1789.7 | 3110.8 |
ATP synthase, H+ transporting, mitochondrial F1 complex, O subunit (ATP5O) | NM_001697 | 21 | 6.94E-05 | 203.7 | 335.9 | 219.1 | 342.7 | 124.5 | 258.4 | 342.4 | 521.4 |
Cystatin B (stefin B) (CSTB) | NM_000100 | 21 | 7.75E-05 | 412 | 695.0 | 584.6 | 868.9 | 855.1 | 1007.3 | 797.4 | 1034.7 |
Phosphofructokinase, liver (PFKL) | BC006422 | 21 | 1.93E-04 | 411 | 476.9 | 255.8 | 492.1 | 247.3 | 397.9 | 390.0 | 433.1 |
Pyridoxal (pyridoxine, vitamin B6) kinase (PDXK) | NM_003681 | 21 | 2.82E-04 | 50.3 | 137.4 | 70.1 | 149.4 | 118.4 | 261.6 | 96.6 | 139.3 |
Collagen, type VI, alpha 1 (COL6A1) | AA292373 | 21 | 5.04E-04 | 559.4 | 963.1 | 1019 | 1417 | 573.7 | 834.4 | 3003.5 | 4177.7 |
Transmembrane protein 1 (TMEM1) | U61500 | 21 | 5.25E-04 | 68.4 | 83.6 | 45.0 | 90.8 | 34.5 | 88.5 | 6.6 | 62.8 |
Ubiquitin specific protease 16 (USP16) | NM_006447 | 21 | 5.33E-04 | 189.8 | 318.8 | 223.1 | 306.5 | 272.5 | 513.4 | 180.0 | 320 |
SMT3 suppressor of mif two 3 homolog 1 (yeast) (SMT3H1) | NM_006936 | 21 | 6.27E-04 | 704.0 | 1181.5 | 823.4 | 1233.1 | 698.7 | 1092.9 | 484.6 | 676.5 |
SON DNA binding protein (SON) | X63071 | 21 | 7.28E-04 | 701.5 | 975.7 | 807.4 | 870.3 | 781.2 | 1181.3 | 761.7 | 924.7 |
Mitochondrial ribosomal protein L39 (MRPL39) | NM_017446 | 21 | 7.48E-04 | 195.2 | 281.5 | 256.7 | 266.2 | 250.6 | 310.1 | 274.1 | 385.9 |
Interferon gamma receptor 2 (IFNGR2) | NM_005534 | 21 | 8.16E-04 | 553.5 | 754.3 | 507.5 | 692.0 | 881.2 | 1307.9 | 639.5 | 811.15 |
Human homolog of ES1 (zebrafish) protein (C21orf33) | D86062 | 21 | 1.02E-03 | 175.5 | 260.5 | 163.5 | 280.1 | 190.0 | 202.1 | 188.4 | 374.7 |
Chaperonin containing TCP1, subunit 8 (theta) (CCT8) | NM_006585 | 21 | 1.45E-03 | 1098 | 1520.4 | 743.6 | 956.3 | 619.0 | 1200.8 | 615.1 | 1089.8 |
Chromosome 21 open reading frame 108 (C21orf108) | AI803485 | 21 | 1.53E-03 | 52.5 | 101.9 | 61.9 | 91.8 | 60.7 | 105.4 | 25.6 | 71.3 |
Tryptophan rich basic protein (WRB) | NM_004627 | 21 | 2.18E-03 | 759.6 | 1439.2 | 926.4 | 1182.4 | 728.6 | 1336.5 | 291.9 | 566.5 |
SMT3 suppressor of mif two 3 homolog 1 (yeast) (SMT3H1) | BG338532 | 21 | 3.15E-03 | 204.0 | 274.6 | 186.6 | 294.2 | 252.2 | 352.2 | 157.3 | 263.7 |
HMT1 hnRNP methyl-transferase-like 1 (HRMT1L1) | NM_001535 | 21 | 3.62E-03 | 670.0 | 920.5 | 584.2 | 843.2 | 489.1 | 471.6 | 363.0 | 525.2 |
Human homolog of ES1 (zebrafish) protein (C21orf33) | NM_004649 | 21 | 4.00E-03 | 491.8 | 818.2 | 589.7 | 918.9 | 455.9 | 665.6 | 713.3 | 1039.4 |
Stress 70 protein chaperone, microsome-associated, 60 kDa (STCH) | AI718418 | 21 | 4.43E-03 | 276.2 | 477.5 | 289 | 308.5 | 418.2 | 738.6 | 59.0 | 111.4 |