Table 4.
Representative gene expression changes decreased in BALB tumors.
| Gene Symbol | Gene Name | Affymetrix Probe ID | Major GO Category(ies) |
|---|---|---|---|
| Angiogenesis | |||
| F13a1 | coagulation factor XIII, A1 subunit | 1448929_at | tRNA aminoacylation for protein translation; blood coagulation |
| Kdr† | kinase insert domain protein receptor | 1449379_at | angiogenesis; ovarian follicle development |
| Tbx1† | T-box 1 | 1425779_a_at | angiogenesis; blood vessel development |
| Apoptosis and cell death | |||
| Rassf5 | ras association (RalGDS/AF-6) domain family 5 | 1422637_at | apoptosis; cell cycle |
| Unc5c | unc-5 homolog C | 1449522_at | apoptosis; signal transduction |
| Immune response | |||
| Cd3d† | CD3 antigen, delta polypeptide | 1422828_at | protein complex assembly; cell surface receptor linked signal transduction |
| Cd79a | CD79A antigen (immunoglobulin-associated alpha) | 1418830_at | immune response; cell surface receptor linked signal transduction |
| Cr2† | complement receptor 2 | 1425289_a_at | immune response; complement activation, classical pathway |
| Ltb | lymphotoxin B | 1419135_at | immune response; lymph node development |
| Ppbp†, Cxcl7 | pro-platelet basic protein | 1418480_at | immune response |
| Slamf1 | signaling lymphocytic activation molecule family member 1 | 1425570_at | lymphocyte activation |
| Tnfrsf13c | tumor necrosis factor receptor superfamily, member 13c | 1419307_at | B cell homeostasis; positive regulation of germinal center formation |
| Inflammatory response and chemotaxis | |||
| Ccl5† | chemokine (C-C motif) ligand 5 | 1418126_at | chemotaxis; inflammatory response |
| Ccr2 | chemokine (C-C motif) receptor 2 | 1421186_at | chemotaxis; inflammatory response |
| Chst1 | carbohydrate (keratan sulfate Gal-6) sulfotransferase 1 | 1449147_at | carbohydrate and galactose metabolic process |
| Enpp2 | ectonucleotide pyrophosphatase/phosphodiesterase 2 | 1415894_at | chemotaxis; metabolic process |
| S100a8 | S100 calcium binding protein A8 | 1419394_s_at | chemotaxis |
| Protein synthesis and turnover | |||
| Cfd | complement factor D (adipsin) | 1417867_at | proteolysis; immune response |
| Gzma | granzyme A | 1417898_a_at | proteolysis; apoptosis |
| Transcription, processing, and chromatin structure | |||
| Hipk2 | homeodomain interacting protein kinase 2 | 1429566_a_at | negative regulation of transcription from RNA polymerase II promoter |
| Myst3 | MYST histone acetyltransferase 3 | 1436315_at | nucleosome assembly |
| SpiB | Spi-B transcription factor | 1460407_at | regulation of transcription, DNA-dependent |
These genes were identified in the "Up-in-KO_tumor" profile (A) and "Down in WT tumor" profile (B) that are below the p value set for the DAVID analysis (p < 0.0001); see Additional file 2, Table S1 for the complete profile gene lists.
*Representative decreased genes from the "Down in WT tumor" profile for genes BALB tumors compared to BALBLsp-d tumors. 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. †Genes down-regulated ≥ 50% in BALB tumors compared to BALBLspd tumors based on GeneSpring.