Table 1. Estimated generation dependent proliferation and death rates.
The table shows the best estimates for the generation dependent proliferation, ρ, and death rates, δ (both in ×10−2h−1), as well as the length of the adaptation phase (in h) for both CD4+ and CD8+ T cells based on the cell proliferation data and dependent on the culture condition. Numbers in brackets denote 95%-confidence intervals obtained by profile likelihood analysis (upper bound of 1 indicates unidentifiability). Estimates are obtained for the best model identified by FAMoS for each cell type indicating influences of the environment on cell proliferation. In addition, standard deviation of the data, (in ×10−3), was estimated with and . A visualization of the estimates can be found in Fig 6B and Panel B in S5 Fig.
| CD4+ T cells | CD8+ T cells | ||||||
|---|---|---|---|---|---|---|---|
| Suspension | Collagen | Suspension | Collagen | ||||
| generation | estimate | generation | estimate | generation | estimate | generation | estimate |
| ρ0 | 3.94 (3.26, 5.00) | ρ0 | 19.8 (7.0, 100) | ρ0 | 100 (68.2, 100) | ρ0 | 100 (68.8, 100) |
| ρ1 | 0.42 (0.37, 0.47) | ρ1 | 1.07 (0.99, 1.18) | ρ1 | 0.61 (0.54, 0.68) | ρ1−2 | 1.47 (1.30, 1.68) |
| ρ2 | 2.13 (1.65, 2.70) | ρ2 | 0.71 (0.60, 0.88) | ρ2 | 0.97 (0.79, 1.17) | ||
| ρ3 | 7.91 (5.85, 11.25) | ρ3 | 2.78 (1.96, 4.25) | ρ3 | 4.99 (3.80, 6.60) | ρ3−4 | 1.15 (1.02, 1.32) |
| ρ4−5 | 20.2 (14.9, 28.2) | ρ4−6 | 9.84 (6.8, 16.1) | ρ4 | 2.21 (1.37, 3.49) | ρ5−7 | 2.02 (1.49, 2.58) |
| ρ5 | 9.40 (5.20, 22.1) | ||||||
| ρ6 | 1.23 (0.79, 2.00) | ||||||
| ρ6−7 | 2.68 (2.30, 3.20) | ρ7−9 | 0.0 (0.0, 5.70) | ρ7 | 5.29 (3.10, 12.70) | ||
| ρ8−9 | 0.28 (0.10, 0.49) | ρ8−9 | 0.02 (0.0, 0.12) | ρ8−9 | 0.04 (0.0, 0.96) | ||
| δ0−1 | 0.58 (0.53, 0.62) | δ0 | 1.74 (1.60, 2.05) | δ0 | 0.40 (0.25, 0.56) | δ0 | 0.79 (0.51, 1.11) |
| δ2−4 | 0.0 (0.0, 0.35) | δ1−4 | 0.0 (0.0, 0.30) | δ1−3 | 0.0 (0.0, 0.04) | δ1 | 0.0 (0.0, 0.25) |
| δ5−6 | 20.9 (16.2, 26.3) | δ5−9 | 16.2 (10.7, 27.3) | δ4−6 | 5.36 (3.60, 7.60) | δ2 | 0.81 (0.37, 1.29) |
| δ7−9 | 0.0 (0.0, 1.08) | δ7−9 | 0.0 (0.0, 2.00) | δ3−9 | 3.14 (2.36, 4.03) | ||
| τ (in h) | 40.6 (38.7, 42.2) | τ (in h) | 46.1 (42.7, 47.6) | τ (in h) | 47.6 (46.4, 47.6) | τ (in h) | 47.5 (47.2, 47.5) |