Table 1.
Representative gene expression changes increased in BALBLsp-d compared to BALB mice.
| Gene Symbol | Gene Name | Affymetrix Probe ID | Major GO Category(ies) |
| Angiogenesis | |||
| Hbegf† | heparin-binding EGF-like growth factor | 1418349_at | angiogenesis; blastocyst growth |
| Mmp19† | matrix metallopeptidase 19 | 1421977_at | angiogenesis; peptidoglycan metabolic process |
| Timp1† | tissue inhibitor of metallo-proteinase 1 | 1460227_at | erythrocyte maturation |
| Cell cycle and cell growth | |||
| Cdkn1a† | cyclin-dependent kinase inhibitor 1A (P21) | 1424638_at | regulation of progression through cell cycle; response to DNA damage stimulus |
| Ereg†‡ | epiregulin | 1419431_at | regulation of progression through cell cycle; angiogenesis |
| Mina | myc induced nuclear antigen | 1451042_a_at | regulation of cell proliferation |
| Myc† | myelocytomatosis oncogene | 1424942_a_at | regulation of progression through cell cycle; release of cytochrome c from mitochondria |
| Socs3 | suppressor of cytokine signaling 3 | 1455899_x_at | regulation of cell growth; regulation of protein amino acid phosphorylation |
| Cell shape and morphogenesis | |||
| Krt19 | keratin 19 | 1417156_at | cytoskeleton organization and biogenesis |
| Tnc† | tenascin C | 1416342_at | cell adhesion |
| Tuba1c | tubulin, alpha 1C | 1416128_at | microtubule-based process and movement |
| Inflammatory and immune response | |||
| Il6† | interleukin 6 | 1450297_at | neutrophil apoptosis |
| Lif† | leukemia inhibitory factor | 1421207_at | immune response; tyrosine phosphorylation of stat3 protein |
| Spp1† | secreted phosphoprotein 1 | 1449254_at | ossification; anti-apoptosis |
| Protein synthesis and turnover | |||
| Eif1a | eukaryotic translation initiation factor 1A | 1419736_a_at | translation and initiation |
| Hras1† | Harvey rat sarcoma virus oncogene 1 | 1422407_s_at | translation; endocytosis |
| Nola1 | nucleolar protein family A, member 1 | 1418305_s_at | rRNA processing; ribosome biogenesis and assembly |
| Nola2 | nucleolar protein family A, member 2 | 1416605_at | rRNA processing; translation |
| Nol5A | nucleolar protein 5 | 1450986_at | ribosome biogenesis and assembly |
| Nmd3 | NMD3 homolog | 1437238_x_at | ribosomal large subunit export from nucleus |
| Rps6ka3 | ribosomal protein S6 kinase polypeptide 3 | 1427299_at | protein amino acid phosphorylation; ribosome biogenesis and assembly |
| Protein targeting | |||
| Afp† | alpha fetoprotein | 1416646_at | ovulation; transport |
| Bcl3† | B-cell leukemia/lymphoma 3 | 1418133_at | protein import into nucleus, translocation; follicular dendritic cell differentiation |
| Bnip1 | BCL2/adenovirus E1B interacting protein 1, NIP1 | 1427908_at | ER to Golgi vesicle-mediated transport; apoptosis |
| Nup62 | Nucleoporin 62 | 1438917_x_at | protein targeting; transport |
| Transcription, processing, and chromatin structure | |||
| Bhlhb8 | basic helix-loop-helix domain containing, class B, 8 | 1449233_at | regulation of transcription, DNA-dependent |
| Ddx39 | DEAD (Asp-Glu-Ala-Asp) box polypeptide 39 | 1423643_at | mRNA processing; RNA splicing |
| Hmga1† | high mobility group AT-hook 1 | 1416184_s_at | DNA packaging; transcription |
| Lmna | lamin A | 1425472_a_at | nuclear membrane organization and biogenesis |
| Pparg† | peroxisome proliferator activated receptor gamma | 1420715_a_at | negative regulation of transcription from RNA polymerase II promoter |
These genes were identified in profile "BHT-1day_up" (A) and profile "BHT-1day_down" (B) below the p value set for the DAVID analysis (p < 0.0003)*; see Additional file 2, Table S1 for the complete profile gene lists.
*These genes were identified after bioinformatic analysis filtering first on biological patterns using both Genespring and Spotfire Software followed by filtering on GO biological categories using the DAVID Bioinformatics Database. †These genes were upregulated ≥ 2-fold in BALBLsp-d vs. BALB 1 day following protocol 1 (chronic BHT) (P < 0.05). ‡Significant interaction effects between strain (BALB vs BALBLpsd mice) and treatment (oil, 1 or 3 days following 4BHT) (p < 0.05). Bolded genes are those genes in common with the gene list identified for Protocol 2 (see Table 2).