1/15
Read
30 min?
W02
Monday
Craft
Goldrick S. et al., "The development of an industrial-scale fed-batch fermentation simulation",…
Monday build block
· Read it inside Monday's build block
This is the paper behind the dataset you are tidying. Paper 2 will cite it
Read exactly: Abstract, all figures, and section 2 (the model)
Produce: Five lines in notes/bio/B2.md: which state variables the simulator actually integrates
In: LABLOOP-W02 Notebook
2/15
Watch
13 min
W02
Tuesday
Craft
Crash Course Biology #7 · "ATP & Respiration"
Tuesday · B2
· Tuesday, first
Produce: Three lines in notes/bio/B2.md: why DO falls when biomass grows
In: LABLOOP-W02 Notebook
3/15
Read
30 min?
W02
Wednesday
Craft
Goldrick S. et al., "Modern day monitoring and control challenges outlined on an industrial-scal…
Wednesday build block
Your whole week-03 alarm evaluation depends on knowing which batches are the faulty ones — and on the licence for redistribution
Read exactly: Abstract + the dataset section: how many batches, which are faulty, how faults are labelled, what the Raman block is
Produce: A variable table (name, unit, online/offline) and the fault list, with quoted sentences and their page numbers
In: LABLOOP-W02 Notebook
4/15
Watch
25 min
W02
Thursday
Craft
3Blue1Brown · Essence of Calculus
Thursday · M2
· Thursday
Produce: notes/ml/M2.md: what a derivative is, in your own words
In: LABLOOP-W02 Notebook
5/15
Watch
22 min
W02
Thursday
Craft
StatQuest · "Principal Component Analysis (PCA), Step-by-Step"
Thursday · M2
· after 3Blue1Brown · Essence of Calculus
· Before Friday's PCA code
Produce: The 3-line explanation of scores vs loadings you will paste into Sunday's post
In: LABLOOP-W02 Notebook
6/15
Read
30 min?
W02
Saturday
Sandbox
optional
OpenStax Biology 2e, ch. 7 "Cellular Respiration"
Saturday sandbox
OpenStax Biology 2e, ch. 7 "Cellular Respiration" — 7-introduction — Glycolysis → citric acid cycle → oxidative phosphorylation, then 7.5 Metabolism without Oxygen. Moved out of core on 2026-09-29
In: LABLOOP-W02 Notebook
7/15
Watch
15 min?
W02
Saturday
Sandbox
optional
3Blue1Brown · Neural Networks
Saturday sandbox
· after OpenStax Biology 2e, ch. 7 "Cellular Respiration"
3Blue1Brown · Neural Networks, ch. 1-2 — Topic page: 3blue1brown.com/topics/neural-networks. Moved out of core on 2026-09-29
In: LABLOOP-W02 Notebook
8/15
Watch
15 min?
W02
Saturday
Sandbox
optional
Steve Brunton
Saturday sandbox
· after 3Blue1Brown · Neural Networks
Steve Brunton (@Eigensteve) · SVD series, first 3 videos — playlist PLMrJAkhIeNNSVjnsviglFoY2nXildDCcv, overview video watch?v=gXbThCXjZFM. PCA's engine explained by an engineer; you will want this again in weeks 12-17
In: LABLOOP-W02 Notebook
9/15
Run
30 min?
W02
Saturday
Sandbox
optional
Deisenroth, Faisal & Ong, Mathematics for Machine Learning, ch. 10 "Dimensionality Reduction wit…
Saturday sandbox
· after Steve Brunton
Deisenroth, Faisal & Ong, Mathematics for Machine Learning, ch. 10 "Dimensionality Reduction with PCA" — free PDF at mml-book.github.io
In: LABLOOP-W02 Notebook
10/15
Watch
15 min?
W02
Saturday
Sandbox
optional
Ninja Nerd · glycolysis and Krebs cycle lectures
Saturday sandbox
· after Deisenroth, Faisal & Ong, Mathematics for Machine Learning, ch. 10 "Dimensionality Reduction wit…
Ninja Nerd · glycolysis and Krebs cycle lectures (long, whiteboard) — channel search by title, only if respiration is still abstract. (verify) no fixed video ID recorded
In: LABLOOP-W02 Notebook
11/15
Read
30 min?
W02
Saturday
Sandbox
optional
industrialpenicillinsimulation.com
Saturday sandbox
· after Ninja Nerd · glycolysis and Krebs cycle lectures
industrialpenicillinsimulation.com — the original IndPenSim site. (verify): it was unreachable in the 2026-09-12 check; prefer the UCL/Mendeley routes in R4 and record whichever one actually served the data, with its licence
In: LABLOOP-W02 Notebook
12/15
Run
30 min
W02
Build
StephenGoldie/indpensim-notebook
Open IndPenSim_Summary_data_notebook_V3.ipynb in Colab; compare their variable list with your tidy table
In: LABLOOP-W02 Notebook
13/15
Run
30 min
W02
Build
jakevdp/PythonDataScienceHandbook
Colab: 03.08-Aggregation-and-Grouping and 05.09-Principal-Component-Analysis
In: LABLOOP-W02 Notebook
14/15
Run
30 min
W02
Build
scikit-learn/scikit-learn
Run the gallery example "PCA example with Iris Data-set", then swap Iris for 20 IndPenSim batches unfolded
In: LABLOOP-W02 Notebook
15/15
Run
30 min
W02
Build
pandas-dev/pandas / pola-rs/polars
melt your wide CSVs to long format, save as parquet; time both libraries on the 100 batches
In: LABLOOP-W02 Notebook