. 2022 Apr 7;11(4):1531–1541. doi: 10.1021/acssynbio.1c00610

Table 1. Comparison of Different Strain Design Tools^a.

tool	C1	C2	C3	C4	C5
OptKnock^b	×	×	×	√	×
OptForce²⁶	×	√	×	×	×
OptCouple²⁰	×	×	×	√	√
OptReg¹⁰	×	√	×	√	×
OptRAM²⁸	×	√	×	×	×
NIHBA²²	√	×	√	√	√
OptDesign (this study)	√	√	√	√	√

(C1) overcomes the uncertainty problem as there is no assumption of exact fluxes or fold changes that cells should have for production, (C2) allows two types of interventions (knockout and up/down regulation), (C3) disregards the assumption of optimal growth in the production mode, (C4) can use with or without reference flux vectors, and (C5) guarantees growth-coupled production (if desired up/down-regulations are achievable in vivo).

The original OptKnock may not always achieve growth-coupled production, but its derivative RobustKnock³⁰ is guaranteed to achieve this.

Table 1. Comparison of Different Strain Design Toolsa.

Table 1. Comparison of Different Strain Design Tools^a.