Science Advances

Supplementary Materials

This PDF file includes:

  • Supplementary Text
  • Definition of QEM
  • Computational model of parallel calibration approach
  • Computational model of trigger response and standardization approach
  • Table S1. Species and their initial conditions in the model of zinc response in cell-free reactions.
  • Table S2. Zinc model parameters and estimated values.
  • Table S3. Equations used to model the zinc response in cell-free reactions.
  • Table S4. Species and their initial conditions in the model of toehold switch circuit in cell-free reactions.
  • Table S5. Toehold switch model parameters and estimated values.
  • Table S6. Equations used to model the toehold switch in cell-free reactions.
  • Table S7. Approximate cost analysis for zinc diagnostic tools.
  • Table S8. Description of plasmids constructed and used in this study.
  • Table S9. Sequences of primers used in this study.
  • Table S10. Sequences of promoters used in this study.
  • Table S11. Sequences of genes used in this study.
  • Table S12. Sequences of plasmids used in this study.
  • Fig. S1. Fluorescent response to zinc addition in CFE systems.
  • Fig. S2. Validation of knockout strains.
  • Fig. S3. Qualitative colorimetric response to added zinc.
  • Fig. S4. Zinc response in lyophilized reactions.
  • Fig. S5. Effect of reporter plasmid concentration on the ability to distinguish between different zinc concentrations.
  • Fig. S6. Quantitative colorimetric response to reactions run in serum.
  • Fig. S7. Response to zinc saturates in 25% serum.
  • Fig. S8. Zinc concentrations in individual donor serum.
  • Fig. S9. Relationship between regulator in standard reactions and zinc in test reactions.
  • Fig. S10. Validation of zinc quantification without added serum.
  • Fig. S11. Validation of direct protein addition to modulate zinc response.
  • Fig. S12. Validation of zinc quantification with direct protein addition.
  • Fig. S13. Comparison of parameterized model and experimental data in zinc-response circuit.
  • Fig. S14. Simulated zinc and regulator mapping.
  • Fig. S15. Perturbation of parameter values to identify the most sensitive parameters in the zinc model.
  • Fig. S16. Color change caused by serum corresponds with a shift in the visible spectrum of CPR.
  • Fig. S17. Human serum albumin replicates the spectrum shift caused by serum.
  • Fig. S18. Naproxen concentration necessary to restore colored intermediates.
  • Fig. S19. Response to trigger RNA addition saturates.
  • Fig. S20. Selected time course readings of test and standard reactions for a toehold sensor.
  • Fig. S21. Relationship between trigger concentration in the test reaction and the switch concentration in the calibration reaction.
  • Fig. S22. Comparison of parameterized model to experimental data in toehold switch circuit.
  • Fig. S23. Simulated trigger RNA and switch plasmid mapping.
  • Fig. S24. Perturbation of parameter values to identify the most sensitive parameters in toehold switch model.
  • Fig. S25. Overview schematic of test manufacture and use.

Download PDF

Files in this Data Supplement: