Table 1 Transcripts where 90% of the variance in gene expression is explained by mtDNA status
Affymetrix Probe ID | Gene Symbol | Entrez GeneID | Gene Description | ρ0 Proportion of Variancea | F testb | ρ0 Vitro/A549 Vitro | ρ0 Vivo/A549 Vivo | |||
|---|---|---|---|---|---|---|---|---|---|---|
FCc | P d | FCc | P d | |||||||
Up-regulated in ρ 0 cells | 214247_s_at | DKK3 | 27122 | dickkopf homolog 3 | 0.98 | 8.62 × 10-11 | 4.4 | 0.0009 | 3.7 | 0.0005 |
209822_s_at | VLDLR | 7436 | very low density lipoprotein receptor | 0.98 | 7.05 × 10-10 | 3.3 | 0.0057 | 2.7 | 0.0002 | |
210105_s_at | FYN | 2534 | FYN oncogene | 0.97 | 9.85 × 10-9 | 3.4 | 0.0082 | 2.7 | 0.0009 | |
221305_s_at | UGT1A8 | 54576 | UDP glucuronosyltransferase 1 family | 0.97 | 1.21 × 10-8 | 8.3 | 0.0088 | 13.1 | 0.0007 | |
202242_at | TSPAN7 | 7102 | tetraspanin 7 | 0.96 | 3.45 × 10-11 | 9.3 | 0.0046 | 9.3 | 0.0005 | |
205119_s_at | FPR1 | 2357 | formyl peptide receptor 1 | 0.96 | 3.82 × 10-9 | 3.8 | 0.0045 | 4.8 | 0.0010 | |
208596_s_at | UGT1A10 | 54575 | UDP glucuronosyltransferase 1 family | 0.96 | 1.20 × 10-10 | 6.2 | 0.0051 | 10.2 | 0.0001 | |
219093_at | PID1 | 55022 | hypothetical protein FLJ20701 | 0.95 | 1.41 × 10-8 | 5.4 | 0.0090 | 4.2 | 0.0020 | |
209040_s_at | PSMB8 | 5696 | proteasome subunit | 0.95 | 2.73 × 10-10 | 3.2 | 0.0048 | 2.9 | 0.0003 | |
206094_x_at | UGT1A6 | 54578 | UDP glucuronosyltransferase 1 family | 0.95 | 6.79 × 10-11 | 5.9 | 0.0041 | 9.7 | 0.0001 | |
219959_at | PTHLH | 55034 | parathyroid hormone-like hormone | 0.94 | 2.77 × 10-9 | 2.8 | 0.0079 | 3.1 | 0.0005 | |
201042_at | TGM2 | 7052 | transglutaminase 2 | 0.94 | 1.64 × 10-6 | 1.6 | 0.0245 | 1.6 | 0.0014 | |
207126_x_at | UGT1A4 | 54657 | UDP glucuronosyltransferase 1 family | 0.93 | 3.45 × 10-11 | 6.7 | 0.0048 | 11.5 | 0.0000 | |
203113_s_at | EEF1D | 1936 | eukaryotic translation elongation factor | 0.92 | 1.10 × 10-5 | 1.5 | 0.0291 | 1.6 | 0.0042 | |
204802_at | RRAD | 6236 | Ras-related associated with diabetes | 0.92 | 9.09 × 10-7 | 2.5 | 0.0289 | 2.7 | 0.0044 | |
215125_s_at | UGT1A10 | 54575 | UDP glucuronosyltransferase 1 family | 0.92 | 8.62 × 10-11 | 7.2 | 0.0045 | 12.7 | 0.0001 | |
213587_s_at | ATP6V0E2 | 155066 | ATPase, H+ transporting V0 subunit e2 | 0.92 | 3.60 × 10-6 | 1.7 | 0.0447 | 1.9 | 0.0021 | |
217739_s_at | PBEF1 | 10135 | pre-B-cell colony enhancing factor 1 | 0.91 | 4.54 × 10-7 | 3.8 | 0.0141 | 11.0 | 0.0004 | |
204532_x_at | UGT1A4 | 54657 | UDP glucuronosyltransferase 1 family | 0.91 | 3.96 × 10-10 | 5.8 | 0.0055 | 10.9 | 0.0000 | |
212160_at | XPOT | 11260 | exportin, tRNA | 0.91 | 1.52 × 10-5 | 1.6 | 0.0524 | 1.9 | 0.0015 | |
212307_s_at | OGT | 8473 | GlcNAc transferase | 0.91 | 6.52 × 10-7 | 1.7 | 0.0273 | 2.4 | 0.0007 | |
203262_s_at | FAM50A | 9130 | family with sequence similarity 50 | 0.91 | 3.01 × 10-5 | 1.5 | 0.0435 | 1.6 | 0.0030 | |
217738_at | PBEF1 | 10135 | pre-B-cell colony enhancing factor 1 | 0.91 | 1.76 × 10-7 | 4.5 | 0.0054 | 11.2 | 0.0007 | |
201462_at | SCRN1 | 9805 | secernin 1 | 0.90 | 2.79 × 10-5 | 1.4 | 0.0186 | 1.5 | 0.0032 | |
219762_s_at | RPL36 | 25873 | ribosomal protein L36 | 0.90 | 8.04 × 10-6 | 1.4 | 0.0073 | 1.7 | 0.0014 | |
212909_at | LYPD1 | 116372 | LY6/PLAUR domain containing 1 | 0.90 | 1.04 × 10-5 | 2.5 | 0.0069 | 1.7 | 0.0050 | |
215025_at | NTRK3 | 4916 | neurotrophic tyrosine kinase, receptor | 0.90 | 6.53 × 10-7 | 2.6 | 0.0179 | 2.2 | 0.0048 | |
201474_s_at | ITGA3 | 3675 | integrin, alpha 3 | 0.90 | 1.57 × 10-6 | 1.8 | 0.0491 | 1.8 | 0.0018 | |
Down-regulated in ρ 0 cells | 211600_at | MT-ND5 | 4540 | mito. encoded NADH dehydrogenase 5 | 0.99 | 4.48 × 10-14 | -73.7 | 0.0007 | -46.9 | 0.0001 |
205674_x_at | FXYD2 | 486 | FXYD domain ion transport regulator 2 | 0.98 | 3.45 × 10-11 | -11.0 | 0.0029 | -14.8 | 0.0004 | |
211203_s_at | CNTN1 | 1272 | contactin 1 | 0.97 | 4.65 × 10-9 | -4.7 | 0.0009 | -3.6 | 0.0015 | |
204698_at | ISG20 | 3669 | interferon stimulated exonuclease gene | 0.96 | 3.67 × 10-8 | -3.5 | 0.0056 | -2.9 | 0.0014 | |
210065_s_at | UPK1B | 7348 | uroplakin 1B | 0.95 | 4.17 × 10-8 | -4.3 | 0.0071 | -6.2 | 0.0013 | |
203108_at | GPRC5A | 9052 | G protein-coupled receptor | 0.95 | 4.96 × 10-9 | -3.4 | 0.0048 | -5.9 | 0.0001 | |
207434_s_at | FXYD2 | 4151 | FXYD domain ion transport regulator 2 | 0.95 | 2.29 × 10-11 | -9.8 | 0.0063 | -12.9 | 0.0003 | |
201065_s_at | GTF2I | 2969 | general transcription factor II, i | 0.95 | 6.30 × 10-7 | -2.0 | 0.0109 | -1.7 | 0.0010 | |
210064_s_at | UPK1B | 7348 | uroplakin 1B | 0.95 | 1.51 × 10-8 | -5.8 | 0.0081 | -5.9 | 0.0020 | |
222088_s_at | SLC2A3 | 6515 | solute carrier family 2, member 3 | 0.95 | 1.46 × 10-8 | -2.1 | 0.0080 | -2.4 | 0.0010 | |
33304_at | ISG20 | 3669 | interferon stimulated exonuclease gene | 0.95 | 3.70 × 10-7 | -2.9 | 0.0077 | -2.4 | 0.0036 | |
218995_s_at | EDN1 | 1906 | endothelin 1 | 0.94 | 3.16 × 10-7 | -2.2 | 0.0333 | -2.7 | 0.0014 | |
219045_at | RHOF | 54509 | ras homolog gene family, member F | 0.93 | 4.81 × 10-7 | -2.9 | 0.0062 | -2.0 | 0.0018 | |
214774_x_at | TNRC9 | 27324 | trinucleotide repeat containing 9 | 0.93 | 4.39 × 10-7 | -2.9 | 0.0109 | -3.9 | 0.0027 | |
206291_at | NTS | 4922 | neurotensin | 0.93 | 6.81 × 10-8 | -102 | 0.0009 | -17.9 | 0.0011 | |
201909_at | RPS4Y1 | 6192 | ribosomal protein S4, Y-linked 1 | 0.92 | 3.55 × 10-8 | -5.8 | 0.0071 | -18.8 | 0.0000 | |
206700_s_at | JARID1D | 8284 | jumonji, AT rich interactive domain 1D | 0.90 | 2.41 × 10-7 | -2.3 | 0.0366 | -4.0 | 0.0000 | |
203043_at | ZBED1 | 9189 | zinc finger, BED-type containing 1 | 0.90 | 6.01 × 10-6 | -1.7 | 0.0427 | -1.9 | 0.0026 | |
202499_s_at | SLC2A3 | 6515 | solute carrier family 2, member 3 | 0.90 | 2.86 × 10-6 | -1.9 | 0.0128 | -2.3 | 0.0073 | |
216623_x_at | TNRC9 | 27324 | trinucleotide repeat containing 9 | 0.90 | 5.79 × 10-7 | -2.6 | 0.0128 | -3.5 | 0.0038 | |