Table 2. List of informative 161 genes defining responders and non-responders.
| Rank | Status | Gene symbol | Gene name | Ref Seq ID |
|---|---|---|---|---|
| 1 | Down | — | dj329l24.3 (member of mcm2/3/5 family) | — |
| 2 | Down | CREBBP | CREB-binding protein (Rubinstein-Taybi syndrome) | NM_004380 |
| 3 | Down | C20orf116 | Chromosome 20 open reading frame 116 | NM_023935 |
| 4 | Down | — | Ensembl genscan prediction | — |
| 5 | Down | SLC25A40 | Solute carrier family 25, member 40 | NM_018843 |
| 6 | Up | ZNF598 | Zinc-finger protein 598 | NM_178167 |
| 7 | Down | RCOR1 | REST corepressor 1 | NM_015156 |
| 8 | Up | TACSTD1 | Tumour-associated calcium signal transducer 1 | NM_002354 |
| 9 | Down | ZNF397 | Zinc-finger protein 397 | NM_032347 |
| 10 | Down | RTP3 | Receptor (chemosensory) transporter protein 3 | NM_031440 |
| 11 | Up | AARS2 | Alanyl-tRNA synthetase 2, mitochondrial (putative) | NM_020745 |
| 12 | Down | RARA | Retinoic acid receptor, alpha | NM_000964 |
| 13 | Up | — | DNA segment on chromosome 4 (unique) 234 expressed sequence | NM_014392 |
| 14 | Up | CASP7 | Caspase 7, apoptosis-related cysteine peptidase | NM_033339 |
| 15 | Up | AZIN1 | Antizyme inhibitor 1 | NM_148174 |
| 16 | Down | — | Ensembl prediction | — |
| 17 | Down | — | Ensembl genscan prediction | — |
| 18 | Up | PABPN1 | Poly(A)-binding protein, nuclear 1 | — |
| 19 | Down | NDUFS7 | NADH dehydrogenase (ubiquinone) Fe-S protein 7, 20 kDa (NADH-coenzyme Q reductase) | NM_024407 |
| 20 | Down | C9orf142 | Chromosome 9 open reading frame 142 | NM_183241 |
| 21 | Down | — | Ensembl genscan prediction | — |
| 22 | Up | SNX21 | Sorting nexin family member 21 | NM_001042632 |
| 23 | Down | C12orf47 | Chromosome 12 open reading frame 47 | XR_017874 |
| 24 | Down | CCRL1 | Chemokine (C–C motif) receptor-like 1 | NM_178445 |
| 25 | Down | GLG1 | Golgi apparatus protein 1 | NM_012201 |
| 26 | Down | MRPS21 | Mitochondrial ribosomal protein S21 | NM_018997 |
| 27 | Up | ABCA2 | ATP-binding cassette, sub-family A (ABC1), member 2 | NM_001606 |
| 28 | Up | AXIN2 | Axin 2 (conductin, axil) | NM_004655 |
| 29 | Down | — | Ensembl genscan prediction | — |
| 30 | Down | NOXA1 | NADPH oxidase activator 1 | NM_006647 |
| 31 | Down | COX4I1 | Cytochrome c oxidase subunit IV isoform 1 | NM_001861 |
| 32 | Up | PCSK7 | Proprotein convertase subtilisin/kexin type 7 | XM_001128785 |
| 33 | Up | FABP3 | Fatty acid-binding protein 3, muscle and heart (mammary-derived growth inhibitor) | NM_004102 |
| 34 | Down | C20orf111 | Chromosome 20 open reading frame 111 | NM_016470 |
| 35 | Down | CAST | Calpastatin | NM_173061 |
| 36 | Down | C12orf47 | Chromosome 12 open reading frame 47 | XR_017874 |
| 37 | Up | — | Hypothetical protein xp_032244 | — |
| 38 | Down | — | Ensembl genscan prediction | — |
| 39 | Up | PCDHA1 | Protocadherin alpha 1 | NM_018900 |
| 40 | Down | MATK | Megakaryocyte-associated tyrosine kinase | NM_002378 |
| 41 | Up | — | Hypothetical protein xp_051475 | — |
| 42 | Up | UBE2Q1 | Ubiquitin-conjugating enzyme E2Q (putative) 1 | NM_017582 |
| 43 | Up | GPATCH4 | G patch domain containing 4 | NM_182679 |
| 44 | Down | PARP2 | Poly (ADP-ribose) polymerase family, member 2 | NM_005484 |
| 45 | Down | HAL | Histidine ammonia-lyase | NM_002108 |
| 46 | Up | ASCC3 | Activating signal cointegrator 1 complex subunit 3 | NM_006828 |
| 47 | Down | KRTAP9-8 | Keratin-associated protein 9–8 | NM_031963 |
| 48 | Up | MAGED4B | Melanoma antigen family D, 4B | NM_030801 |
| 49 | Down | — | Hypothetical LOC339123 | NM_001005920 |
| 50 | Down | SPHK1 | Sphingosine kinase 1 | NM_021972 |
| 51 | Up | — | Partial ighv ig h-chain v-region clone a81 | — |
| 52 | Up | CCDC109A | Coiled-coil domain containing 109A | NM_138357 |
| 53 | Up | GPR139 | G protein-coupled receptor 139 | NM_001002911 |
| 54 | Up | C1orf78 | Chromosome 1 open reading frame 78 | NM_018166 |
| 55 | Down | LRRC50 | Leucine rich repeat containing 50 | — |
| 56 | Down | FAM125B | Family with sequence similarity 125, member B | NM_033446 |
| 57 | Down | IFT52 | Intraflagellar transport 52 homolog (Chlamydomonas) | NM_016004 |
| 58 | Down | C3orf36 | Chromosome 3 open reading frame 36 | NM_025041 |
| 59 | Up | GUCA1B | Guanylate cyclase activator 1B (retina) | NM_002098 |
| 60 | Down | EDF1 | Endothelial differentiation-related factor 1 | NM_003792 |
| 61 | Down | CCDC69 | Coiled-coil domain containing 69 | NM_015621 |
| 62 | Down | NDUFS6 | NADH dehydrogenase (ubiquinone) Fe-S protein 6, 13 kDa (NADH-coenzyme Q reductase) | NM_004553 |
| 63 | Up | CD93 | CD93 molecule | NM_012072 |
| 64 | Down | — | Ensembl genscan prediction | — |
| 65 | Down | ENO2 | Enolase 2 (gamma, neuronal) | NM_001975 |
| 66 | Down | CDCP2 | CUB domain-containing protein 2 | — |
| 67 | Down | — | Ensembl genscan prediction | — |
| 68 | Up | — | Similar to helicase-like protein nhl | — |
| 69 | Down | FOXN3 | Forkhead box N3 | NM_005197 |
| 70 | Down | DEF8 | Differentially expressed in FDCP 8 homolog (mouse) | NM_207514 |
| 71 | Up | — | Hypothetical protein xp_034013 | — |
| 72 | Down | TNS3 | Tensin 3 | NM_022748 |
| 73 | Up | FAM40A | Family with sequence similarity 40, member A | NM_033088 |
| 74 | Down | PRDM7 | PR domain containing 7 | NM_052996 |
| 75 | Up | — | Hypothetical protein xp_039419 | — |
| 76 | Up | NNMT | Nicotinamide N-methyltransferase | NM_006169 |
| 77 | Up | RPL9 | Ribosomal protein L9 | — |
| 78 | Up | ITM2C | Integral membrane protein 2C | NM_030926 |
| 79 | Up | — | Ensembl genscan prediction | — |
| 80 | Up | BEX4 | BEX family member 4 | XM_936467 |
| 81 | Up | CSNK1G1 | Casein kinase 1, gamma 1 | NM_022048 |
| 82 | Up | EEF2K | Eukaryotic elongation factor-2 kinase | NM_013302 |
| 83 | Down | DNAJC8 | DnaJ (Hsp40) homolog, subfamily C, member 8 | — |
| 84 | Up | GP5 | Glycoprotein V (platelet) | NM_004488 |
| 85 | Down | DPH3 | DPH3, KTI11 homolog (S. cerevisiae) | NM_001047434 |
| 86 | Down | — | Ensembl genscan prediction | — |
| 87 | Up | RPS21 | Ribosomal protein S21 | — |
| 88 | Down | — | Kiaa1658 protein | — |
| 89 | Down | ADCYAP1R1 | Adenylate cyclase activating polypeptide 1 (pituitary) receptor type I | NM_001118 |
| 90 | Down | C5orf25 | Chromosome 5 open reading frame 25 | XR_015120 |
| 91 | Down | — | PRO0132 protein | NR_002763 |
| 92 | Down | FGF3 | Fibroblast growth factor 3 (murine mammary tumour virus integration site (v-int-2) oncogene homolog) | NM_005247 |
| 93 | Up | FABP7 | Fatty acid-binding protein 7, brain | NM_001446 |
| 94 | Down | HSD11B1 | Hydroxysteroid (11–beta) dehydrogenase 1 | NM_181755 |
| 95 | Up | — | Chondroitin sulphate glucuronyltransferase | NM_019015 |
| 96 | Down | OPTN | Optineurin | NM_001008213 |
| 97 | Up | — | Erythroid differentiation-related factor 2 | — |
| 98 | Down | — | Truncated alpha ig h-chain of disease patient har | — |
| 99 | Down | WT1 | Wilms tumour 1 | NM_024425 |
| 100 | Down | C8G | Complement component 8, gamma polypeptide | NM_000606 |
| 101 | Down | — | pro1454 | — |
| 102 | Down | CADM1 | Cell adhesion molecule 1 | NM_001098517 |
| 103 | Down | GH1 | Growth hormone 1 | — |
| 104 | Down | DNPEP | Aspartyl aminopeptidase | NM_012100 |
| 105 | Up | — | Actin-like gene | — |
| 106 | Down | — | Ensembl genscan prediction | — |
| 107 | Down | — | Ensembl genscan prediction | — |
| 108 | Up | INTS4 | Integrator complex subunit 4 | NM_033547 |
| 109 | Down | SRA1 | Steroid receptor RNA activator 1 | NM_001035235 |
| 110 | Down | — | Ensembl genscan prediction | — |
| 111 | Up | RPS25 | Ribosomal protein S25 | NM_001028 |
| 112 | Down | — | KIAA1450 protein | NM_020840 |
| 113 | Up | SH2D3C | SH2 domain containing 3C | NM_170600 |
| 114 | Down | NDUFA12 | NADH dehydrogenase (ubiquinone) 1 alpha subcomplex, 12 | NM_018838 |
| 115 | Down | — | NEFA-interacting nuclear protein NIP30 | NM_024946 |
| 116 | Down | TDRD1 | tudor domain containing 1 | NM_198795 |
| 117 | Down | — | 14a9ct dna sequence | — |
| 118 | Up | FBXW11 | F-box and WD repeat domain containing 11 | NM_012300 |
| 119 | Down | CBFA2T3 | Core-binding factor, runt domain, alpha subunit 2; translocated to, 3 | NM_005187 |
| 120 | Down | TCF3 | Transcription factor 3 (E2A immunoglobulin enhancer-binding factors E12/E47) | NM_003200 |
| 121 | Down | LASS5 | LAG1 homolog, ceramide synthase 5 | NM_147190 |
| 122 | Down | — | Ensembl genscan prediction | — |
| 123 | Up | ACTR1B | ARP1 actin-related protein 1 homolog B, centractin beta (yeast) | NM_005735 |
| 124 | Down | — | Hypothetical protein mgc5566 | — |
| 125 | Up | RPS4X | Ribosomal protein S4, X-linked | XR_019325 |
| 126 | Down | CDK6 | Cyclin-dependent kinase 6 | NM_001259 |
| 127 | Up | AVIL | Advillin | — |
| 128 | Down | — | Hypothetical protein xp_043732 | — |
| 129 | Down | C1orf136 | Chromosome 1 open reading frame 136 | — |
| 130 | Down | — | Hypothetical protein xp_043783 | — |
| 131 | Down | — | Ews-fli-1 | — |
| 132 | Up | CDC42BPG | CDC42-binding protein kinase gamma (DMPK-like) | NM_017525 |
| 133 | Down | — | Ensembl genscan prediction | — |
| 134 | Down | GDAP1L1 | Ganglioside-induced differentiation-associated protein 1-like 1 | NM_024034 |
| 135 | Up | C12orf4 | Chromosome 12 open reading frame 4 | NM_020374 |
| 136 | Up | KIAA0415 | KIAA0415 | NM_014855 |
| 137 | Down | PDLIM2 | PDZ and LIM domain 2 (mystique) | NM_198042 |
| 138 | Down | KHK | Ketohexokinase (fructokinase) | NM_006488 |
| 139 | Down | SLC36A1 | Solute carrier family 36 (proton/amino acid symporter), member 1 | NM_078483 |
| 140 | Up | — | Hypothetical protein xp_050311 | — |
| 141 | Up | TBRG4 | Transforming growth factor β regulator 4 | NM_199122 |
| 142 | Down | — | Rearranged vk3 of Hodgkin cell line | — |
| 143 | Up | CD59 | CD59 molecule, complement regulatory protein | NM_203330 |
| 144 | Down | PEX26 | Peroxisome biogenesis factor 26 | — |
| 145 | Up | VEGFC | Vascular endothelial growth factor C | NM_005429 |
| 146 | Down | DTX2 | Deltex homolog 2 (Drosophila) | XM_941785 |
| 147 | Up | ELAVL3 | ELAV (embryonic lethal, abnormal vision, Drosophila)-like 3 (Hu antigen C) | NM_032281 |
| 148 | Up | BSDC1 | BSD domain containing 1 | NM_018045 |
| 149 | Down | FUBP3 | Far upstream element (FUSE)-binding protein 3 | XM_001128545 |
| 150 | Down | CCDC48 | Coiled-coil domain containing 48 | NM_024768 |
| 151 | Down | EPHA6 | EPH receptor A6 | NM_001080448 |
| 152 | Down | ST8SIA1 | ST8 alpha-N-acetyl-neuraminide alpha-2,8-sialyltransferase 1 | NM_003034 |
| 153 | Down | MKKS | McKusick-Kaufman syndrome | NM_018848 |
| 154 | Down | MGA | MAX gene associated | NM_001080541 |
| 155 | Up | — | Hypothetical protein xp_040140 | — |
| 156 | Down | — | Hypothetical protein xp_043452 | — |
| 157 | Up | MMP20 | Matrix metallopeptidase 20 (enamelysin) | NM_004771 |
| 158 | Up | SLC23A2 | Solute carrier family 23 (nucleobase transporters), member 2 | NM_005116 |
| 159 | Up | GABARAPL1 | GABA(A) receptor-associated protein like 1 | NM_031412 |
| 160 | Down | — | Ensembl genscan prediction | — |
| 161 | Up | PKLR | Pyruvate kinase, liver and RBC | NM_000298 |
Ranking was according to absolute value of signal-to-noise ratio.
Status was defined as expression in non-responders compared with responders.