Example — Glycolysis demo¶
Category: Big (AI agent) · Script: examples/big/04_glycolysis_demo.py
Summarise and simulate BIOMD0000000206 in one agent run.
How to run¶
pip install -e "src/praisonai-bio"
export OPENAI_API_KEY=sk-...
python examples/big/04_glycolysis_demo.py
Needs: Internet + OpenAI API key + BASICO for simulation.
Tested output¶
Live capture from ./scripts/capture_example_outputs.sh.
Click to view full output
### Summary of Model BIOMD0000000206
- **Model ID:** BIOMD0000000206
- **Title:** Wolf 2000 - Glycolytic Oscillations
- **Structure:**
- **Species:** 9
- **Reactions:** 11
- **Compartments:** 1
- **Parameters:** 18
### Simulation Outcomes (Duration: 50 units)
The simulation results show the dynamics of several key species:
1. **ATP Concentration:**
- Initial: 2.0
- Variations: Peaks and troughs observed with values fluctuating up to 3.0.
2. **Triose (Gly3Phos + DHAP):**
- Near initial concentration of 0.6, tending to stabilize around 0.5.
3. **Acetaldehyde:**
- Fluctuates between 0.07 and 0.08.
4. **NAD:**
- Starts at 0.6 with slight fluctuations.
5. **Pyruvate:**
- Steady initial concentration around 8, showing minor perturbations.
6. **Glucose:**
- Fluctuations observed from 1.0 down to roughly 0.26 at troughs.
### Notable Trend
- The concentrations of ATP and Pyruvate exhibit oscillatory behavior, reflecting the model's focus on glycolytic dynamics.
This summary and simulation provide insights into the oscillatory characteristics of glycolysis as modeled in BIOMD0000000206. If you need further details or specific analyses, feel free to ask!