Table 3.
Statistics of AUP values obtained in comparing different classes of design methods on mRNA design challenges in this study.
| mRNA design challenge | Multi-epitope vaccine | Nanoluciferase | eGFP + degron | Spike RBD | Full Spike |
|---|---|---|---|---|---|
| Protein length (aa) | 47 | 221 | 284 | 210 | 1303 |
| mRNA CDS length (nt) | 144 | 666 | 855 | 633 | 3912 |
| Standard methodsb, mean(std) AUP | 0.34(4) | 0.36(2) | 0.40(2) | 0.39(2) | 0.40(2) |
| Standard methodsb, min. AUP | 0.21 | 0.31 | 0.36 | 0.33 | 0.36 |
| Stabilizing methodsc, mean(std) AUP | 0.19(7) | 0.22(7) | 0.26(7) | 0.22(7) | 0.20(5) |
| Stabilizing methodsc, min. AUPd | 0.13 | 0.15 | 0.19 | 0.15 | 0.17 |
| Mean standard / mean stabilizing | 1.78 | 1.64 | 1.56 | 1.74 | 1.95 |
| Min. standard / min. stabilizing | 1.64 | 2.03 | 1.92 | 2.24 | 2.16 |
| Mean standard / min stabilized | 2.65 | 2.36 | 2.17 | 2.65 | 2.40 |
a
mRNA length = 3 × protein length + 3 (stop codon).
b
Uniform codons, GC codons, GENEWIZ, IDT, Twist.
c
Eterna p(unp) challenge, RiboTree, LinearDesign.
d
In all cases, minimal AUP was achieved in Eterna p(unp) challenge.