ePURE: Mechanistic Model Data for Protein Translation Activity in a Cell-Free System

108.9 KB of mechanistic model data investigating the bell-shaped dependence of protein production on EF-Tu concentration in the PURE cell-free system. The dataset, authored by Shunnosuke Ban and last updated in May 2026, likely contains computational analysis results from a model describing hundreds of molecular species and reactions. It was used to identify a resource competition mechanism and guide experimental optimization of protein synthesis.

Use Cases

• Calibrating mechanistic models of translation based on reaction dynamics data.
• Analyzing the impact of tRNA and enzyme concentrations on protein yield based on the described competition mechanism.
• Optimizing cell-free protein synthesis systems to avoid non-intuitive input-output relationships.

Strengths

• Data is derived from a detailed mechanistic model (ePURE) describing hundreds of molecular species and reactions.
• The underlying study includes experimental validation of model predictions, suggesting a strong link between the data and biological reality.
• The dataset is small (108.9 KB), facilitating quick download and initial exploration.

Limitations

• The dataset is very small (108.9 KB), indicating limited scope and likely a focused subset of model outputs.
• Row count and specific column definitions are unknown, requiring manual inspection after download to understand the data structure.
• Description metadata is limited; actual data quality requires manual inspection after download.

Provenance

Source

figshare, author Shunnosuke Ban.

Collection Method

Likely generated from computational analysis using the ePURE mechanistic model of translation.

Freshness

Last updated 2026-05-28 14:07:50; freshness should be verified.