Table 2.
Lists of Differentially Expressed Genes in the Horizontal and Vertical Comparisons: Nonmetastatic Tumor versus Lung Metastases (P < 0.005, fc > 1.5)
| P value | fc | Gene description | Accession no. | Probe set |
|---|---|---|---|---|
| Top 20 genes up-regulated in the nonmetastatic tumor (versus the lung metastases) | ||||
| 0.000027 | 3.49 | Guanine nucleotide binding protein (G protein), gamma 11 | NM_004126.1 | 204115_at |
| 0.000027 | 1.92 | Non-POU domain containing, octamer-binding | NM_007363.2 | 200057_s_at |
| 0.000031 | 2.03 | Chromosome 11 hypothetical protein ORF3 | NM_020154.1 | 217898_at |
| 0.000037 | 2.4 | Mahogunin, ring finger 1 | AB011116.1 | 212576_at |
| 0.000041 | 8.62 | Similar to X-linked ribosomal protein 4 (RPS4X) | AL137162 | 217019_at |
| 0.000052 | 2.22 | Cytoplasmic FMR1-interacting protein 1 | BC005097.1 | 208923_at |
| 0.000056 | 1.63 | Dual specificity phosphatase 4 | BC002671.1 | 204015_s_at |
| 0.000058 | 2.43 | RNA binding protein S1, serine-rich domain | NM_006711.1 | 207939_x_at |
| 0.00007 | 1.55 | Superoxide dismutase 1, soluble (amyotrophic lateral sclerosis 1 (adult)) | NM_000454.1 | 200642_at |
| 0.000072 | 2.6 | Synaptosomal-associated protein, 23 kd | BC003686.1 | 209130_at |
| 0.000081 | 1.91 | Succinate-CoA ligase, GDP-forming, β subunit | AL050226.1 | 215772_x_at |
| 0.000088 | 1.68 | PVVP2 periodic tryptophan protein homolog (yeast) | U56085.1 | 209336_at |
| 0.000089 | 2.01 | Similar to RPS3A (ribosomal protein S3A) | AL356115 | 216823_at |
| 0.000093 | 1.7 | Sialyltransferase 4C (β-galactoside α-2,3-sialyltransferase) | NM_006278.1 | 203759_at |
| 0.000096 | 477.5 | Cancer/testis antigen 1 | AF038567.1 | 211674_x_at |
| 0.000096 | 2.74 | Regulator of G-protein signaling 10 | NM_002925.2 | 204316_at |
| 0.000097 | 2.58 | TYRO3 protein tyrosine kinase | U05682.1 | 211432_s_at |
| 0.000097 | 1.91 | ALEX3 protein | NM_016607.1 | 217858_s_at |
| 0.000111 | 2.09 | Hypothetical gene supported by AK000185 | AK000185.1 | 216644_at |
| 0.000115 | 2.12 | MAX interacting protein 1 | NM_005962.1 | 202364_at |
| Top 20 genes up-regulated in the lung metastases (versus the nonmetastatic tumor) | ||||
| 0.000002 | 2.12 | DEAD (Asp-Glu-Ala-Asp) box polypeptide 39 | NM_005804.1 | 201584_s_at |
| 0.000002 | 5.17* | Neuroblastoma, suppression of tumorigenicity 1 | NM_005380.1 | 201621_at |
| 0.000003 | 5.28 | Serine (or cysteine) proteinase inhibitor, clade F, member 1 | NM_002615.1 | 202283_at |
| 0.000003 | 7.75 | Ribonuclease, RNase A family, 1 (pancreatic) | NM_002933.1 | 201785_at |
| 0.000004 | 3.72 | Neuroblastoma, suppression of tumorigenicity 1 | D28124 | 37005_at |
| 0.000004 | 6.18 | Osteopontin | M83248.1 | 209875_s_at |
| 0.000005 | 2.03 | Adaptor-related protein complex 2, σ 1 subunit | BC006337.1 | 211047_x_at |
| 0.000006 | 8.71 | LIM domain protein | BC003096.1 | 211564_s_at |
| 0.000009 | 13.92 | Baculoviral IAP repeat-containing 7 (livin) | NM_022161.1 | 220451_s_at |
| 0.00001 | 3.06 | KIAA0930 protein | AK025608.1 | 217118_s_at |
| 0.000011 | 1.65 | Cytochrome c oxidase subunit Vlb | NM_001863.2 | 201441_at |
| 0.000013 | 13.79 | Ocular albinism 1 (Nettleship-Falls) | NM_000273.1 | 206696_at |
| 0.000017 | 2.69 | Six transmembrane epithelial antigen of the prostate | NM_012449.1 | 205542_at |
| 0.000017 | 3.4 | Retinoblastoma-associated factor 600 | AB007931.1 | 211950_at |
| 0.00002 | 82.72 | G antigen 4 | NM_001476.1 | 208155_x_at |
| 0.000024 | 6.76 | Slalyltransferase | NM_006456.1 | 204542_at |
| 0.000027 | 2.36 | N-Acylsphingosine amidohydrolase (acid ceramidase) 1 | AI934569 | 213702_x_at |
| 0.000028 | 3.62 | Arginase, type II | U75667.1 | 203946_s_at |
| 0.000037 | 1.68 | Heme binding protein 1 | NM_015987.1 | 218450_at |
| 0.000047 | 7.32 | Proteoglycan 1, secretory granule | J03223.1 | 201858_s_at |
*
Refuted by Q-PCR.