Table S3.
Fifty highest up-regulated genes (q < 0.01) in mouse colon scrapings for the comparison of control Abx vs. control
| Gene symbol | Gene description | SI ± SEM | Fold change (heme + Abx vs. heme) | SI ± SEM | Fold change (control + Abx vs. control) | ||||||
| Heme | Heme + Abx | Control | Control + Abx | ||||||||
| SI | SEM | SI | SEM | SI | SEM | SI | SEM | ||||
| Ighv1-85 | Ig heavy variable 1–85 | 99 | 40 | 64 | 16 | NS | 20 | 8 | 135 | 62 | 5.7 |
| Ighv8-12 | Ig heavy variable V8-12 | 561 | 61 | 439 | 35 | NS | 196 | 41 | 1,111 | 246 | 5.6 |
| Cxcl9 | Chemokine (C-X-C motif) ligand 9 | 75 | 12 | 236 | 59 | NS | 62 | 18 | 326 | 47 | 5.6 |
| Gm12250 | Predicted gene 12250 | 32 | 6 | 81 | 22 | NS | 37 | 9 | 190 | 39 | 5.1 |
| Ifi44 | IFN-induced protein 44 | 70 | 7 | 124 | 21 | NS | 66 | 6 | 340 | 82 | 4.8 |
| Oas3 | 2'-5′ oligoadenylate synthetase 3 | 50 | 5 | 97 | 14 | NS | 51 | 5 | 241 | 41 | 4.6 |
| Ddx60 | DEAD (Asp-Glu-Ala-Asp) box polypeptide 60 | 83 | 14 | 173 | 26 | 2.1 | 115 | 10 | 486 | 78 | 4.1 |
| Usp18 | Ubiquitin specific peptidase 18 | 67 | 9 | 89 | 16 | NS | 48 | 4 | 204 | 39 | 4.1 |
| Ccl8 | Chemokine (C-C motif) ligand 8 | 30 | 3 | 55 | 6 | 1.8 | 22 | 3 | 81 | 8 | 3.7 |
| Gm5431 | Predicted gene 5431 | 17 | 3 | 61 | 15 | NS | 49 | 11 | 185 | 48 | 3.7 |
| Oas2 | 2'-5′ oligoadenylate synthetase 2 | 63 | 8 | 94 | 13 | NS | 56 | 3 | 215 | 42 | 3.6 |
| Oasl2 | 2'-5′ oligoadenylate synthetase-like 2 | 217 | 39 | 432 | 66 | 2.0 | 247 | 12 | 905 | 123 | 3.6 |
| Ifi47 | IFN gamma inducible protein 47 | 69 | 14 | 128 | 28 | NS | 79 | 16 | 265 | 44 | 3.4 |
| H2-DMa | Histocompatibility 2, class II, locus dma | 112 | 8 | 175 | 17 | NS | 99 | 9 | 340 | 50 | 3.3 |
| Gm9740 | Predicted gene 9740 | 116 | 50 | 191 | 43 | NS | 76 | 8 | 251 | 37 | 3.3 |
| Igkv1-117 | Ig kappa chain variable 1–117 | 522 | 13 | 518 | 54 | NS | 355 | 57 | 1,201 | 259 | 3.2 |
| Apol9b | Apolipoprotein L 9b | 22 | 2 | 37 | 3 | NS | 21 | 4 | 66 | 11 | 3.2 |
| Ifit1 | IFN-induced protein with tetratricopeptide repeats 1 | 129 | 21 | 255 | 39 | NS | 188 | 13 | 610 | 94 | 3.1 |
| Apol7c | Apolipoprotein L 7c | 43 | 7 | 41 | 6 | NS | 29 | 3 | 89 | 7 | 3.1 |
| Apol9a | Apolipoprotein L 9a | 73 | 4 | 110 | 13 | NS | 68 | 7 | 213 | 34 | 3.1 |
| H2-Q6 | Histocompatibility 2, Q region locus 6 | 185 | 8 | 303 | 25 | 1.6 | 178 | 13 | 561 | 91 | 3.1 |
| Ubd | Ubiquitin D | 18 | 1 | 28 | 4 | NS | 17 | 1 | 58 | 15 | 3.0 |
| H2-Aa | Histocompatibility 2, class II antigen A, alpha | 525 | 29 | 791 | 55 | NS | 482 | 47 | 1,484 | 213 | 3.0 |
| H2-Q9 | Histocompatibility 2, Q region locus 9 | 104 | 11 | 160 | 16 | NS | 88 | 3 | 279 | 48 | 3.0 |
| Igtp | IFN gamma induced gtpase | 47 | 7 | 107 | 26 | NS | 71 | 13 | 222 | 44 | 3.0 |
| Rtp4 | Receptor transporter protein 4 | 93 | 14 | 187 | 29 | 2.0 | 111 | 10 | 331 | 42 | 3.0 |
| Gm4951 | Predicted gene 4951 | 28 | 2 | 54 | 10 | NS | 35 | 6 | 118 | 37 | 2.9 |
| Slc6a19 | Solute carrier family 6 (neurotransmitter transporter), member 19 | 81 | 14 | 320 | 53 | 3.9 | 21 | 2 | 60 | 6 | 2.8 |
| H2-Ab1 | Histocompatibility 2, class II antigen A, beta 1 | 698 | 30 | 965 | 62 | NS | 607 | 68 | 1,677 | 189 | 2.8 |
| Herc6 | Hect domain and RLD 6 | 69 | 8 | 135 | 19 | NS | 118 | 9 | 340 | 65 | 2.7 |
| Cd74 | CD74 antigen (invariant polypeptide of major histocompatibility complex, class II antigen-associated) | 877 | 38 | 1160 | 94 | NS | 775 | 70 | 2,112 | 221 | 2.7 |
| Gbp3 | Guanylate binding protein 3 | 43 | 5 | 71 | 12 | NS | 56 | 9 | 157 | 31 | 2.7 |
| AI747448 | Expressed sequence AI747448 | 570 | 94 | 225 | 49 | −2.7 | 71 | 12 | 187 | 21 | 2.7 |
| Zbp1 | Z-DNA binding protein 1 | 98 | 13 | 148 | 23 | NS | 142 | 21 | 395 | 76 | 2.7 |
| Psmb8 | Proteasome (prosome, macropain) subunit, beta type 8 (large multifunctional peptidase 7) | 70 | 7 | 120 | 14 | NS | 88 | 11 | 249 | 47 | 2.7 |
| Rsad2 | Radical S-adenosyl methionine domain containing 2 | 57 | 9 | 139 | 21 | 2.4 | 56 | 1 | 152 | 15 | 2.7 |
| Tap1 | Transporter 1, ATP-binding cassette, subfamily B (MDR/TAP) | 134 | 11 | 243 | 36 | NS | 161 | 18 | 439 | 72 | 2.6 |
| Gm5571 | Predicted gene 5571 | 429 | 102 | 439 | 71 | NS | 250 | 29 | 691 | 159 | 2.6 |
| Dnase1l3 | Dnase 1-like 3 | 59 | 3 | 104 | 9 | 1.7 | 53 | 2 | 138 | 5 | 2.6 |
| Nlrc5 | NLR family, CARD domain containing 5 | 45 | 3 | 68 | 7 | NS | 42 | 3 | 110 | 16 | 2.5 |
| Trac | T-cell receptor alpha constant | 97 | 14 | 274 | 27 | 2.8 | 127 | 10 | 320 | 24 | 2.5 |
| Gbp8 | Guanylate-binding protein 8 | 43 | 3 | 73 | 8 | NS | 47 | 6 | 120 | 17 | 2.5 |
| Ifit3 | IFN-induced protein with tetratricopeptide repeats 3 | 55 | 3 | 106 | 13 | 1.9 | 79 | 3 | 210 | 45 | 2.5 |
| Ifit2 | IFN-induced protein with tetratricopeptide repeats 2 | 28 | 1 | 39 | 4 | NS | 32 | 1 | 87 | 21 | 2.5 |
| Upp1 | Uridine phosphorylase 1 | 322 | 46 | 542 | 66 | NS | 518 | 53 | 1,280 | 148 | 2.5 |
| Tfrc | Transferrin receptor | 493 | 105 | 567 | 38 | NS | 288 | 2 | 708 | 30 | 2.4 |
| Dhx58 | DEXH (Asp-Glu-X-His) box polypeptide 58 | 81 | 7 | 111 | 10 | NS | 74 | 4 | 184 | 23 | 2.4 |
| Nrg1 | Neuregulin 1 | 255 | 9 | 155 | 14 | −1.7 | 83 | 10 | 199 | 14 | 2.4 |
| H2-DMb1 | Histocompatibility 2, class II, locus Mb1 | 28 | 1 | 44 | 2 | NS | 30 | 5 | 73 | 12 | 2.4 |
| Irgm2 | Immunity-related gtpase family M member 2 | 146 | 22 | 343 | 68 | NS | 250 | 34 | 597 | 87 | 2.3 |
Table includes only genes with a signal intensity > 20 in at least one condition. n = 4 per group for Control, Control Abx, and Heme; n = 6 per group for Heme Abx.