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Table 4 Representative gene expression changes decreased in BALB tumors.

From: Transcriptomic analysis of pathways regulated by toll-like receptor 4 in a murine model of chronic pulmonary inflammation and carcinogenesis

Gene Symbol Gene Name Affymetrix Probe ID Major GO Category(ies)
Angiogenesis
F 13a 1 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
S 100a 8 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
  1. 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.
  2. *Representative decreased genes from the "Down in WT tumor" profile for genes BALB tumors compared to BALBLsp-dtumors. 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 BALBLspdtumors based on GeneSpring.