Table 3.
Genes associated with PCD and mitochondrial function
| Gene symbol | GenBank ID | Description | Fold change | P-value |
|---|---|---|---|---|
| Extrinsic pathway | ||||
| CASP8 | NM_001228 | caspase 8, apoptosis-related cysteine peptidase | 1.21115 | 0.0033 |
| CFLAR | AF015451 | CASP8 and FADD-like apoptosis regulator | 1.15656 | 0.0038 |
| FAS | Z70519 | Fas (TNF receptor superfamily, member 6) | 1.23956 | 0.0013 |
| LMNB1 | NM_005573 | lamin B1 | 1.18341 | 0.001 |
| NFRKB | NM_006165 | nuclear factor related to kappaB binding protein | 1.19163 | 0.0037 |
| TNFAIP8 | BC005352 | tumor necrosis factor, alpha-induced protein 8 | 1.18175 | 0.0032 |
| TNFRSF10B | BC001281 | tumor necrosis factor receptor superfamily, member 10b | 1.36905 | 0.0005 |
| TNFRSF21 | BE568134 | tumor necrosis factor receptor superfamily, member 21 | 1.19511 | 0.0037 |
| TNIP2 | AA522816 | TNFAIP3 interacting protein 2 | 1.2128 | 0.0038 |
| TRADD | L41690 | TNFRSF1A-associated via death domain | 1.31697 | 0.0034 |
| ER – associated pathway | ||||
| ATF4 | NM_001675 | activating transcription factor 4 | −2.00755 | 0.0024 |
| Intrinsic pathway and mitochondrial dysfunction | ||||
| ABL1 | NM_005157 | v-abl Abelson murine leukemia viral oncogene homolog 1 | −1.49544 | 0.0034 |
| API5 | NM_006595 | apoptosis inhibitor 5 | −1.18448 | 0.0036 |
| BCL2L1 | AL117381 | BCL2-like 1 | −1.45305 | 0.004 |
| BCLAF1 | NM_014739 | BCL2-associated transcription factor 1 | −1.39014 | 0.0012 |
| ERCC2 | AI918117 | excision repair cross-compl. rodent repair deficiency, compl. | 1.22115 | 0.0021 |
| FOXO3 | N25732 | forkhead box O3 | −1.87088 | 0.0004 |
| GSTA1 | AL096729 | Glutathione S-transferase A1 | 1.2062 | 0.0041 |
| LRPPRC | M92439 | leucine-rich PPR-motif containing | −1.95934 | 0.0015 |
| MAPK6 | NM_002748 | mitogen-activated protein kinase 6 | −1.75607 | 0.0003 |
| MAPK8IP3 | AB028989 | mitogen-activated protein kinase 8 interacting protein 3 | −2.29438 | 0.0036 |
| PDCD2 | AA764988 | programmed cell death 2 | 1.26341 | 0.0042 |
| PDCD6 | NM_013232 | programmed cell death 6 | −1.22536 | 0.0036 |
| PPM1F | D86995 | protein phosphatase 1F (PP2C domain containing) | −1.43727 | 0.0024 |
| PPP2CA | BC000400 | protein phosphatase 2 (formerly 2A), catalytic subunit, alpha | −1.84478 | 0.0003 |
| PPP2CB | NM_004156 | protein phosphatase 2 (formerly 2A), catalytic subunit, beta | −2.00412 | 0.0015 |
| PPP5C | NM_006247 | protein phosphatase 5, catalytic subunit | 1.31025 | 0.0031 |
| PRKCA | AI471375 | protein kinase C, alpha | −1.54495 | 0.0032 |
| SOD1 | NM_000454 | superoxide dismutase 1, soluble (ALS 1 adult) | −3.39997 | 0.0017 |
| SPHK2 | AA485440 | sphingosine kinase 2 | −1.76387 | 0.0039 |
| TEGT | NM_003217 | testis enhanced gene transcript (BAX inhibitor 1) | −2.12068 | 0.0031 |
| ATP5A1 | AI587323 | ATP synthase, H+ transport., mitochon. F1 complex, alpha 1 | −2.29564 | 0.001 |
| ATP5G3 | NM_001689 | ATP synthase, H+ transport., mitochon. F0 complex, subunit C3 | −2.22158 | 0.0021 |
| ATP5H | AF061735 | ATP synthase, H+ transport., mitochon. F0 complex, subunit d | −1.65063 | 0.0008 |
| ATP5J | NM_001685 | ATP synthase, H+ transport., mitochon. F0 complex, subunit F6 | −2.57595 | 0.0003 |
| ATP5L | NM_006476 | ATP synthase, H+ transporting, mitochondrial F0 complex, G | −1.33854 | 0.0025 |
| CA5A | NM_001739 | carbonic anhydrase VA, mitochondrial | 1.1286 | 0.0022 |
| COX5B | NM_001862 | cytochrome c oxidase subunit Vb | −1.85634 | 0.0013 |
| COX6C | NM_004374 | cytochrome c oxidase subunit Vic | −2.04083 | 0.0044 |
| COX7A2L | NM_004718 | cytochrome c oxidase subunit VIIa polypeptide 2 like | −2.02931 | 0.0002 |
| COX7C | NM_001867 | cytochrome c oxidase subunit VIIc | −3.00246 | 0.0007 |
| COX8A | NM_004074 | cytochrome c oxidase subunit 8A (ubiquitous) | −1.7393 | 0.0019 |
| FH | NM_000143 | fumarate hydratase | −1.37515 | 0.0021 |
| GK3P | AA292874 | glycerol kinase 3 pseudogene | 1.18797 | 0.0002 |
| GK | AJ252550 | glycerol kinase | 1.29147 | 0.0046 |
| GLS | NM_014905 | glutaminase | −6.01418 | 0.0004 |
| GPD2 | U79250 | glycerol-3-phosphate dehydrogenase 2 (mitochondrial) | 1.23037 | 0.0013 |
| HSPE1 | NM_002157 | heat shock 10kDa protein 1 (chaperonin 10) | −1.424 | 0.00003 |
| IMMT | NM_006839 | inner membrane protein, mitochondrial (mitofilin) | −2.16309 | 0.0009 |
| LARS | NM_020117 | leucyl-tRNA synthetase | 1.51549 | 0.0033 |
| LARS2 | D21851 | leucyl-tRNA synthetase 2, mitochondrial | −1.45482 | 0.0012 |
| LARS2 | D21851 | leucyl-tRNA synthetase 2, mitochondrial | −1.45482 | 0.0012 |
| MTCH1 | AF189289 | mitochondrial carrier homolog 1 (C. elegans) | −2.83831 | 0.0035 |
| MRPL15 | NM_014175 | mitochondrial ribosomal protein L15 | −1.34774 | 0.0014 |
| MRPL3 | BC003375 | mitochondrial ribosomal protein L3 | −1.98992 | 0.0009 |
| MRPL34 | AB049652 | mitochondrial ribosomal protein L34 | −1.32983 | 0.0028 |
| MRPL40 | NM_003776 | mitochondrial ribosomal protein L40 | −1.27334 | 0.0012 |
| MRPL9 | AB049636 | mitochondrial ribosomal protein L9 | 1.26286 | 0.0002 |
| NDUFA1 | NM_004541 | NADH dehydrog. (ubiquinone) 1 alpha subcomplex, 1, 7.5kDa | −2.08152 | 0.0042 |
| NDUFA4 | NM_002489 | NADH dehydrog. (ubiquinone) 1 alpha subcomplex, 4, 9kDa | −1.63321 | 0.0004 |
| NDUFA6 | NM_002490 | NADH dehydrog. (ubiquinone) 1 alpha subcomplex, 6, 14kDa | −2.4391 | 0.0013 |
| NDUFAB1 | NM_005003 | NADH dehydrogenase (ubiquinone) 1 α/β subcomplex, 1, 8kDa | −2.29908 | 0.0009 |
| NDUFB2 | NM_004546 | NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 2, 8kDa | −3.70075 | 0.002 |
| NDUFB3 | NM_002491 | NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 3, 12kDa | −2.43627 | 0.0023 |
| NDUFB4 | NM_004547 | NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 4, 15kDa | −2.02087 | 0.0011 |
| NDUFB8 | NM_005004 | NADH dehydrogenase (ubiquinone) 1 beta subcomplex, 8, 19kDa | −7.45941 | 0.0001 |
| NDUFB11 | NM_019056 | NADH dehydrogenase (ubiquinone) 1 β subcomplex11, 17.3kDa | −1.45351 | 0.0037 |
| NDUFC1 | NM_002494 | NADH dehydrog. (ubiquinone) 1 subcomplex unknown, 1, 6kDa | −1.82726 | 0.00004 |
| NDUFS5 | NM_004552 | NADH dehydrogenase (ubiquinone) Fe-S prot. 5, 15kDa | −2.852 | 0.0029 |
| NDUFS5 | NM_004552 | NADH dehydrogenase (ubiquinone) Fe-S protein 5, 15kDa | −2.852 | 0.0029 |
| OAT | NM_000274 | ornithine aminotransferase (gyrate atrophy) | −1.76667 | 0.0005 |
| OAZ3 | AW611641 | ornithine decarboxylase antizyme 3 | 1.15114 | 0.0018 |
| ODC1 | NM_002539 | ornithine decarboxylase 1 | −1.55264 | 0.0001 |
| PCCB | NM_000532 | propionyl Coenzyme A carboxylase, beta polypeptide | −1.16783 | 0.0006 |
| SDHC | BG110532 | succinate dehydrog. complex, subunit C, int. mem. prot., 15kDa | −1.98456 | 0.0012 |
| SFXN3 | NM_030971 | sideroflexin 3 | −1.75734 | 0.0013 |
| SUMO3 | NM_006936 | SMT3 suppressor of mif two 3 homolog 3 (S. cerevisiae) | −2.68799 | 0.0002 |
| TIMM17A | AK023063 | translocase of inner mitochondrial mem. 17 homolog A (yeast) | −2.59562 | 0.0021 |
| TOMM20 | BG165094 | translocase of outer mitochondrial membrane 20 homolog (yeast) | −1.09291 | 0.0007 |
| UCRC | NM_013387 | ubiquinol-cytochrome c reductase complex (7.2 kD) | −1.94979 | 0.0004 |
| UQCRC2 | NM_003366 | ubiquinol-cytochrome c reductase core protein II | 1.18331 | 0.001 |
| UQCRH | NM_006004 | ubiquinol-cytochrome c reductase hinge protein | −2.87814 | 0.0001 |