Table 4. Hematology, cytokines, and targeted RNA-seq of LPS-treated and control Rattus norvegicus.
Table 4—source data 1. Targeted RNA-seq of blood of Rattus norvegicus with or without treatment with LPS and with normalization by Ptprc transcripts.
elife-90135-table4-data1.xlsx (21.6KB, xlsx)
Table 4—source data 2. Differentially expressed genes of genome-wide RNA-seq of blood of R. norvegicus with and without treatment with LPS.
elife-90135-table4-data2.xlsx (5.7MB, xlsx)
| Variable | Control (n=5) mean (95% CI)* | LPS (n=11) mean (95% CI)*,† | Fold change | FDR p value |
|---|---|---|---|---|
| Hematology | ||||
| Hematocrit (%) | 48 (46–50) | 48 (46–49) | 1.0 | 1E+00 |
| White blood cells | 7660 (7200–8310) | 4980 (2020–7940) | 0.75 | 2E-01 |
| Neutrophils | 3680 (3260–4090) | 1410 (520–2290) | 0.38 | 4E-03 |
| Lymphocytes | 3170 (3010–3330) | 2830 (1230–4430) | 0.89 | 8E-01 |
| Neutrophil/lymphocyte | 1.17 (1.01–1.33) | 0.49 (0.44–0.55) | 0.42 | 7E-09 |
| Blood cytokines (pg/ml) | ||||
| Interleukin-6 | 0 (0–0) | 36933 (21676–52190) | . | 5E-15 |
| Interleukin-10 | 9 (1-17) | 640 (477–802) | 71 | 2E-09 |
| Interferon-gamma | 0 (0–0) | 9091 (7126–11056) | . | 9E-20 |
| Targeted RNA-seq | ||||
| Akt1 | 35.8 (29.8–42.9) | 24.3 (21.5–27.5) | 0.68 | 4E-03 |
| Akt2 | 50.8 (44.9–57.4) | 109 (95.2–125) | 2.2 | 9E-06 |
| Arg1 | 0.04 (0.02–0.08) | 0.21 (0.10–0.44) | 4.8 | 2E-02 |
| Cd14 | 7.7 (5.3–11.2) | 43.4 (29.6–63.6) | 5.6 | 9E-05 |
| Cd177 | 0.89 (0.43–1.8) | 190 (143–251) | 213 | 2E-10 |
| Cd3 | 32.3 (27.7–37.6) | 21.9 (18.5–25.8) | 0.68 | 1E-02 |
| Cd69 | 17.9 (16.7–19.2) | 58.9 (49.1–70.7) | 3.3 | 9E-07 |
| Cgas | 1.5 (1.3–1.6) | 12.8 (10.8–15.1) | 8.7 | 3E-10 |
| Cxcl10 | 0.43 (0.34–0.56) | 130 (93.7–181) | 302 | 1E-11 |
| Dhx58 | 7.1 (6.7–7.6) | 113 (97.3–130) | 15.8 | 3E-12 |
| ERV env | 8.4 (7.5–9.3) | 713 (624–815) | 85.3 | 1E-14 |
| ERV gag-pol | 6.0 (5.4–6.7) | 506 (449–570) | 84.3 | 7E-15 |
| Fcgr2a | 114 (87.0–150) | 764 (631–925) | 6.7 | 4E-08 |
| Fcgr2b | 32.5 (24.6–43.1) | 161 (127–204) | 4.9 | 2E-06 |
| Fcgr3 | 15.2 (13.6–17.0) | 13.9 (11.8–16.3) | 0.91 | 5E-01 |
| Gapdh | 327 (237–451) | 1643 (1385–1949) | 5.0 | 2E-07 |
| Gbp4 | 35.7 (33.6–38.0) | 269 (237–306) | 7.5 | 3E-11 |
| Ifih1 | 18.7 (17.1–20.4) | 165 (149–184) | 8.8 | 2E-12 |
| Ifit1 | 102 (70.0–147) | 756 (677–844) | 7.4 | 3E-09 |
| Ifng | 0.47 (0.32–0.67) | 10.3 (6.4–16.5) | 22.1 | 1E-06 |
| Il10 | 0.12 (0.07–0.21) | 4.5 (3.4–5.8) | 38.2 | 5E-09 |
| Il12 | 0.07 (0.04–0.11) | 3.2 (2.0–4.9) | 45.9 | 7E-08 |
| Il1b | 58.6 (39.7–86.4) | 618 (503–760) | 10.6 | 2E-08 |
| Il6 | 0.06 (0.05–0.08) | 4.4 (2.9–6.6) | 70.9 | 6E-09 |
| Irf7 | 44.8 (36.9–54.3) | 443 (372–528) | 9.9 | 6E-10 |
| Isg15 | 15.6 (13.1–18.7) | 624 (534–729) | 39.9 | 6E-13 |
| Itgam | 66.3 (52.5–83.7) | 208 (161–269) | 3.1 | 9E-05 |
| Mmp8 | 75.2 (50.4–112) | 519 (438–615) | 6.9 | 7E-08 |
| Mx2 | 40.7 (35.9–46.2) | 900 (780–1039) | 22.1 | 1E-12 |
| Nos2 | 32.4 (17–60.6) | 2990 (2491–3589) | 92.4 | 1E-10 |
| Oas1 | 23.1 (18.8–28.4) | 151 (140–164) | 6.6 | 3E-11 |
| Rigi (Ddx58) | 8.6 (7.8–9.4) | 151 (135–168) | 17.6 | 1E-13 |
| S100a9 | 298 (190–466) | 2884 (2269–3666) | 9.7 | 2E-07 |
| Saa1 | 0.60 (0.49–0.73) | 699 (552–884) | 1167 | 4E-14 |
| Slpi | 20.2 (13.1–31.3) | 262 (197–347) | 12.9 | 1E-07 |
| Sod2 | 63.8 (51.1–79.6) | 901 (759–1070) | 14.1 | 2E-10 |
| Tlr4 | 5.3 (4.6–6.0) | 20.1 (17.2–23.6) | 3.8 | 8E-08 |
| Tnf | 1.1 (0.63–1.9) | 78.8 (62.6–99.1) | 72.8 | 2E-10 |
| Ratios | ||||
| Akt1/Akt2 | 0.70 (0.65–0.76) | 0.22 (0.19–0.25) | 0.31 | 2E-08 |
| Cd14/Fcgr3 | 0.51 (0.34–0.76) | 3.14 (2.26–4.36) | 6.16 | 1E-05 |
| IL12/IL10 | 0.54 (0.22–1.37) | 0.70 (0.51–0.95) | 1.30 | 5E-01 |
| Nos2/Arg1 | 741 (403–1362) | 14244 (7615–26646) | 19.2 | 5E-05 |
*
For targeted RNA-seq it is mean unique reads for given gene normalized for reads for Ptprc (Cd45) gene for a sample. The 95% confidence intervals (CI) are asymmetric. Actual [gene]/Ptprc ratios are x 10–3.
†
The results for rats receiving 5 µg/g (n=6) and 20 µg/g (n=5) were combined.