Pioreactor project docs (pioreactor.com) — see a real, open-source mini bioreactor with optical…
Saturday sandbox · after SciPy documentation for scipy.integrate.solve_ivp (the solver you will use); read the "Examples"
In: LABLOOP-W01 Notebook
CARDS · WEEKS · THE WHOLE PLAN
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need right now?
One box over every resource card and every document in the project. Type a thing you are stuck on.
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7 RESOURCES
Things to watch, read or run
LearnChemE · "Washout Derivation in CSTR Bioreactor (Bio)"
Saturday sandbox · after Khan Academy (MCAT) · "Enzymes and activation energy"
In: LABLOOP-W01 Notebook
NPTEL Bioreactors
Saturday sandbox · after MIT OCW 18.06 Linear Algebra
In: LABLOOP-W01 Notebook
NPTEL Bioreactors
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In: LABLOOP-W09 Notebook
NPTEL Bioreactors
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In: LABLOOP-W10 Notebook
NPTEL Bioreactors lectures on oxygen transfer
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In: LABLOOP-W11 Notebook
jrcramos/Hybrid-modeling-of-bioreactor-with-LSTM
In: LABLOOP-W12 Notebook
📚
16 DOCUMENTS
Where the plan talks about it
- LABLOOP · Master Plan v6 — The Cartographer's Path: from program manager to published AI scientist for biotech
t is genuinely new, and where the plan teaches it:** cell biology and metabolism (B1-B8), bioreactor engineering (B9-B12), statistical thinking beyond dashboards (M3-M7, B13-B14), how models learn (M8-M9), uncertainty (M10, M16), and the craft of a scientific paper (B15, M18, weeroot24× - LABLOOP W09 — fermlit scale up: full learning notebook
cal discoveries. ### Biology/domain assignment retained from the plan Source unit: B9 · Bioreactors I: modes and balances Material: NPTEL "Bioreactors" (IIT Madras, Prof. G. K. Suraishkumar), lectures 1-3 — nptel.ac.in (verify current playlist); MIT OCW 10.37 lecture notes onexecution-plan/weeks/week-09-fermlit-scale-up9× - LABLOOP · Master Plan v5 — From program manager to published AI scientist for biotech
B7 notes | A 2-page "biology for my thesis" summary | Prompt P3 quiz score ≥ 4/5 | | B9 · Bioreactors I: modes and balances | 9 | NPTEL "Bioreactors" (IIT Madras, Prof. G. K. Suraishkumar), lectures 1-3 — nptel.ac.in (verify current playlist); MIT OCW 10.37 lecture notes on bioreroot7× - LABLOOP W01 — fermentation simulator: full learning notebook
n (estimate) | | [Pioreactor project docs (pioreactor.com) — see a real, open-source mini bioreactor with optical… — source](https://pioreactor.com) · [card](http://127.0.0.1:5000/learn?week=1#card-w01-8eff33cf) | deeper / Saturday · sandbox, optional | Pioreactor project docs (pexecution-plan/weeks/week-01-fermentation-simulator6× - Week 09 — fermlit scale up
ncluded paper has a stable identity and eligible full text. | | Tuesday | 90 min | NPTEL "Bioreactors" (IIT Madras, Prof. G. K. Suraishkumar), lectures 1-3 — nptel.ac.in (verify current playlist); MIT OCW 10.37 lecture notes on bioreactors as backup Produce: Mass balances for batexecution-plan/weeks/week-09-fermlit-scale-up6× - Applied AI for Biotech R&D and Biomanufacturing — Upskilling Plan v4
fit) | Instrument | Sells as | |---|---|---|---|---|---| | **A** | Process and telemetry: bioreactors, photobioreactors, digesters, incubation rooms, extrusion lines, cold chain | Manual monitoring, paper or spreadsheet batch records, no golden batch, no early deviation detectionroot5× - LABLOOP W10 — annotation agreement and analysis: full learning notebook
lly calibrated. ### Biology/domain assignment retained from the plan Source unit: B10 · Bioreactors II: kinetics and yields Material: NPTEL lectures 4-6 (Monod, yields, maintenance) Produce: Yield coefficients computed on IndPenSim Understanding check: You can explain Yx/s aexecution-plan/weeks/week-10-annotation-agreement-and-analysis4× - LABLOOP W11 — fermlit dataset engineering: full learning notebook
lator exercise. ### Biology/domain assignment retained from the plan Source unit: B11 · Bioreactors III: oxygen transfer and scale-up Material: NPTEL lectures on kLa, mixing, scale-up Produce: kLa estimated from IndPenSim DO data Understanding check: You can say why scale-upexecution-plan/weeks/week-11-fermlit-dataset-engineering4× - Week 01 — Materials: what to read, what to watch
tion-energy). Moved out of core on 2026-09-29. - LearnChemE · "Washout Derivation in CSTR Bioreactor (Bio)" — [watch?v=L_bzv0bbU4M](https://www.youtube.com/watch?v=L_bzv0bbU4M). The engineer's version of what happens when the feed stops — which is exactly Friday's injected fault.execution-plan/weeks/week-01-fermentation-simulator3× - Programme progress
nes, streamed like a plant" with the Grafana screenshot. L-Wed (Wednesday): "what a blind bioreactor costs" (archetype note). - **Only one thing:** `monod.py` with the plot. ### Week 2 · One hundred real batches - **Goal:** IndPenSim loaded, understood, and one golden-batch pictexecution-plan2× - Sources and resource verification
find from the channel or rely on ISLP 5.2); Ninja Nerd glycolysis/Krebs lectures; NPTEL *Bioreactors* course number 102106053; industrialpenicillinsimulation.com (also unreachable in the 2026-09-12 check — use the UCL/Mendeley routes and record the licence); Kourti & MacGregor 1execution-plan2× - LABLOOP W12 — endorsement and hybrid model: full learning notebook
Python notebooks for chapter 7 (SINDy) in Colab | 30 min | | [jrcramos/Hybrid-modeling-of-bioreactor-with-LSTM — source](https://github.com/jrcramos/Hybrid-modeling-of-bioreactor-with-LSTM) · [card](http://127.0.0.1:5000/learn?week=12#card-w12-b12afcf2) | run / Any block this weeexecution-plan/weeks/week-12-endorsement-and-hybrid-model2× - LABLOOP W00 — cockpit and positioning: full learning notebook
e Teaching example: “Built a monitoring dashboard” supports software delivery. “Detected bioreactor failures reliably” additionally needs labeled test batches, an alarm policy, misses and false alarms. Put the first claim in the baseline if true; keep the second as a research quexecution-plan/weeks/week-00-cockpit-and-positioning1× - Week 01 — fermentation simulator
nes, streamed like a plant" with the Grafana screenshot. L-Wed (Wednesday): "what a blind bioreactor costs" (archetype note). - **Only one thing:** `monod.py` with the plot.execution-plan/weeks/week-01-fermentation-simulator1× - Week 10 — annotation agreement and analysis
tion requirement. ## Learning specification ### Biology/domain unit Source unit: B10 · Bioreactors II: kinetics and yields Material: NPTEL lectures 4-6 (Monod, yields, maintenance) Produce: Yield coefficients computed on IndPenSim Understanding check: You can explain Yx/s aexecution-plan/weeks/week-10-annotation-agreement-and-analysis1× - Week 11 — fermlit dataset engineering
tion requirement. ## Learning specification ### Biology/domain unit Source unit: B11 · Bioreactors III: oxygen transfer and scale-up Material: NPTEL lectures on kLa, mixing, scale-up Produce: kLa estimated from IndPenSim DO data Understanding check: You can say why scale-upexecution-plan/weeks/week-11-fermlit-dataset-engineering1×