LABLOOP · THE DECK

455 CARDS · 41 WEEKS · EVERY SOURCE THE PLAN NAMES

Everything you could
study, filtered.

Every video, chapter, paper and repository in the programme, as one card each, with the time it costs and why it is there. Filter by how long you have.

Search the plan too →
Type Watch Read Run Track Biology AI & stats Build Craft Depth Core Optional Time ≤15 ≤30 ≤60 Week This week Clear all

103 cards shown. Stashes: LABLOOP-W00 Notebook (15) LABLOOP-W01 Notebook (18) LABLOOP-W02 Notebook (15) LABLOOP-W03 Notebook (19) LABLOOP-W04 Notebook (17) LABLOOP-W05 Notebook (16) LABLOOP-W06 Notebook (12) LABLOOP-W07 Notebook (12) LABLOOP-W08 Notebook (15) LABLOOP-W09 Notebook (10) LABLOOP-W10 Notebook (11) LABLOOP-W11 Notebook (12) LABLOOP-W12 Notebook (12) LABLOOP-W13 Notebook (13) LABLOOP-W14 Notebook (12) LABLOOP-W15 Notebook (10) LABLOOP-W16 Notebook (14) LABLOOP-W17 Notebook (13) LABLOOP-W18 Notebook (10) LABLOOP-W19 Notebook (10) LABLOOP-W20 Notebook (10) LABLOOP-W21 Notebook (13) LABLOOP-W22 Notebook (10) LABLOOP-W23 Notebook (9) LABLOOP-W24 Notebook (9) LABLOOP-W25 Notebook (12) LABLOOP-W26 Notebook (11) LABLOOP-W27 Notebook (10) LABLOOP-W28 Notebook (6) LABLOOP-W29 Notebook (7) LABLOOP-W30 Notebook (10) LABLOOP-W31 Notebook (8) LABLOOP-W32 Notebook (5) LABLOOP-W33 Notebook (13) LABLOOP-W34 Notebook (12) LABLOOP-W35 Notebook (10) LABLOOP-W36 Notebook (8) LABLOOP-W37 Notebook (7) LABLOOP-W38 Notebook (6) LABLOOP-W39 Notebook (6) LABLOOP-W40 Notebook (6)

8/15 Watch 18 min W00 Sunday Craft

Barbara Oakley · "Learning how to learn"

Sunday, before writing post 0 · Sunday, before writing post 0

Produce: One line in notes/craft/W00.md: which ritual in Part 0.3 is your diffuse-mode slot

Open ↗

In: LABLOOP-W00 Notebook

9/15 Watch 60 min W00 Sunday Craft

Richard Hamming · "You and Your Research"

Sunday, before writing post 0 · after Barbara Oakley · "Learning how to learn" · Only if you prefer voice to text — it replaces R1, it does not add to it. Play at 1.25× while packing the cockpit

Produce: Same output as R1

Open ↗

In: LABLOOP-W00 Notebook

10/15 Watch 40 min W00 Craft

Learning How to Learn

Any block this week · Optional substitute for V1 if you want the full treatment

Produce: Nothing. Do not enrol in the whole course

Open ↗

In: LABLOOP-W00 Notebook

1/18 Watch 6 min W01 Monday Craft

LearnChemE (CU Boulder) · "Monod Cell Growth Example (Bio)"

Monday build block · Monday, before coding

Produce: A hand-sketched growth curve taped next to the screen

Open ↗

In: LABLOOP-W01 Notebook

5/18 Watch 30 min W01 Thursday Craft

3Blue1Brown · Essence of Linear Algebra

Thursday · M1 · Thursday, first

Produce: notes/ml/M1.md: what a matrix does to a vector; one example redone in NumPy

Open ↗

In: LABLOOP-W01 Notebook

9/18 Watch 15 min? W01 Saturday Sandbox optional

Khan Academy, Energy and enzymes → Activation energy

Saturday sandbox · after OpenStax Biology 2e, ch. 3 "Biological Macromolecules"

Khan Academy, Energy and enzymes → Activation energy (article) — One article + the practice set. Moved out of core on 2026-09-29

Open ↗

In: LABLOOP-W01 Notebook

10/18 Watch 15 min? W01 Saturday Sandbox optional

Crash Course Biology #3 · "Biological Molecules — You Are What You Eat"

Saturday sandbox · after Khan Academy, Energy and enzymes → Activation energy

Crash Course Biology #3 · "Biological Molecules — You Are What You Eat" — youtube.com/watch?v=H8WJ2KENlK0. Moved out of core on 2026-09-29

Open ↗

In: LABLOOP-W01 Notebook

11/18 Watch 15 min? W01 Saturday Sandbox optional

Khan Academy (MCAT) · "Enzymes and activation energy"

Saturday sandbox · after Crash Course Biology #3 · "Biological Molecules — You Are What You Eat"

Khan Academy (MCAT) · "Enzymes and activation energy" — khanacademy.org/…/v/enzymes-and-activation-energy. Moved out of core on 2026-09-29

Open ↗

In: LABLOOP-W01 Notebook

12/18 Watch 15 min? W01 Saturday Sandbox optional

LearnChemE · "Washout Derivation in CSTR Bioreactor (Bio)"

Saturday sandbox · after Khan Academy (MCAT) · "Enzymes and activation energy"

LearnChemE · "Washout Derivation in CSTR Bioreactor (Bio)" — watch?v=L_bzv0bbU4M. The engineer's version of what happens when the feed stops — which is exactly Friday's injected fault

Open ↗

In: LABLOOP-W01 Notebook

13/18 Watch 15 min? W01 Saturday Sandbox optional

MIT OCW 18.06 Linear Algebra

Saturday sandbox · after LearnChemE · "Washout Derivation in CSTR Bioreactor (Bio)"

MIT OCW 18.06 Linear Algebra (Gilbert Strang), lectures 1-3 — ocw.mit.edu/courses/18-06-linear-algebra-spring-2010. Only if 3Blue1Brown leaves you wanting proofs

Open ↗

In: LABLOOP-W01 Notebook

14/18 Watch 15 min? W01 Saturday Sandbox optional

NPTEL Bioreactors

Saturday sandbox · after MIT OCW 18.06 Linear Algebra

NPTEL Bioreactors (Suraishkumar, IIT Madras), lecture 1 — nptel.ac.in/courses/102106053. A preview of week 09. (verify) course numbering

Open ↗

In: LABLOOP-W01 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

Open ↗

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

Open ↗

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

Open ↗

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

Open ↗

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

Open ↗

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

Find it ↗ search

In: LABLOOP-W02 Notebook

5/20 Watch 17 min W03 Thursday Craft

3Blue1Brown · "Eigenvectors and eigenvalues"

Thursday · M3 · Thursday, first

Produce: One sentence in notes/ml/M3.md: what last Friday's principal components actually are

Open ↗
6/20 Watch 7 min W03 Thursday Craft

StatQuest · "Machine Learning Fundamentals: Bias and Variance"

Thursday · M3 · after 3Blue1Brown · "Eigenvectors and eigenvalues" · Thursday, after V4

Produce: The bias-variance sentence in notes/ml/M3.md

Open ↗

In: LABLOOP-W03 Notebook

7/20 Watch 13 min W03 Thursday Craft

StatQuest · "Linear Regression, Clearly Explained!!!"

Thursday · M3 · after StatQuest · "Machine Learning Fundamentals: Bias and Variance" · Thursday, after V2

Produce: One regression fitted on two IndPenSim variables and read aloud: slope, intercept, what it means

Open ↗

In: LABLOOP-W03 Notebook

8/20 Watch 15 min? W03 Saturday Sandbox optional

ISLP

Saturday sandbox

ISLP ch. 2 and 3.1-3.3 — statlearning.com (free PDF) + the matching Stanford Statistical Learning with Python videos. Moved out of core on 2026-09-29

Open ↗

In: LABLOOP-W03 Notebook

11/20 Watch 15 min? W03 Saturday Sandbox optional

Crash Course Statistics

Saturday sandbox · after Kourti & MacGregor (1995), "Process analysis, monitoring and diagnosis, using multivariate proje…

Crash Course Statistics (YouTube), episodes on the normal distribution and control charts' ancestor, the z-score

Find it ↗ search

In: LABLOOP-W03 Notebook

13/20 Watch 15 min? W03 Saturday Sandbox optional

Stanford Online · Statistical Learning with Python

Saturday sandbox · after James, Witten, Hastie, Tibshirani & Taylor, An Introduction to Statistical Learning with Applica…

Stanford Online · Statistical Learning with Python (Hastie, Tibshirani et al.) — Playlist: youtube.com/playlist?list=PLoROMvodv4rPP6braWoRt5UCXYZ71GZIQ · course page: online.stanford.edu/courses/sohs-ystatslearningp-statistical-learning-python. Moved out of core on 2026-09-29

Open ↗

In: LABLOOP-W03 Notebook

1/17 Watch 10 min W04 Tuesday Craft

Khan Academy · "Fermentation and anaerobic respiration"

Tuesday · B4 · Tuesday, first

Produce: One paragraph in notes/bio/B4.md: "what is a fermentation, really"

Open ↗

In: LABLOOP-W04 Notebook

3/17 Watch 6 min W04 Thursday Craft

StatQuest · "Machine Learning Fundamentals: Cross Validation"

Thursday · M4 · Thursday, first

Produce: The sentence "why random k-fold is wrong for batch data" in notes/ml/M4.md

Open ↗

In: LABLOOP-W04 Notebook

9/17 Watch 15 min? W04 Saturday Sandbox optional

StatQuest · "Bootstrapping Main Ideas!!!"

Saturday sandbox · after Sandve G. et al., "Ten Simple Rules for Reproducible Computational Research", PLOS Comp. Biol. 9…

StatQuest · "Bootstrapping Main Ideas!!!" — Channel: youtube.com/@statquest — search the exact title. (verify): no stable video ID confirmed on 2026-09-15. Moved out of core on 2026-09-29

Open ↗

In: LABLOOP-W04 Notebook

3/16 Watch 13 min W05 Tuesday Biology

Crash Course Biology #11 "DNA, Hot Pockets, & The Longest Word Ever"

Tuesday · after OpenStax Biology 2e

Crash Course Biology #11 "DNA, Hot Pockets, & The Longest Word Ever" (YouTube, 13 min)

Find it ↗ search

In: LABLOOP-W05 Notebook

11/16 Watch 25 min W05 Craft

StatQuest "Regularization Part 1: Ridge (L2) Regression"

StatQuest "Regularization Part 1: Ridge (L2) Regression" and "Gradient Boost Part 1: Regression Main Ideas" (YouTube, 25 min)

Find it ↗ search

In: LABLOOP-W05 Notebook

4/12 Watch 75 min W06 Thursday AI & stats

Statistical Rethinking 2024

Statistical Rethinking 2024, lectures 1-2 (YouTube, from github.com/rmcelreath/stat_rethinking_2024) or Murphy, Probabilistic Machine Learning: An Introduction, ch. 2 — probml.github.io/pml-book/book1.html (75 min). Pick Rethinking if you want stories; Murphy if you want equations

Open ↗

In: LABLOOP-W06 Notebook

7/12 Watch 15 min W06 Saturday Sandbox optional

3Blue1Brown "Bayes theorem, the geometry of changing beliefs"

Saturday sandbox · after McHugh (2012), "Interrater reliability: the kappa statistic"

3Blue1Brown "Bayes theorem, the geometry of changing beliefs" (YouTube, 15 min)

Find it ↗ search

In: LABLOOP-W06 Notebook

2/12 Watch 50 min W07 Tuesday Biology

MIT OCW 7.016 lectures on protein structure and enzymes

MIT OCW 7.016 lectures on protein structure and enzymes (ocw.mit.edu/courses/7-016-introductory-biology-fall-2018), ~50 min

Open ↗

In: LABLOOP-W07 Notebook

3/12 Watch 15 min W07 Tuesday Biology

Khan Academy "Steady states and the Michaelis Menten equation"

Tuesday · after MIT OCW 7.016 lectures on protein structure and enzymes

Khan Academy "Steady states and the Michaelis Menten equation" (MCAT section) (15 min)

Find it ↗ search

In: LABLOOP-W07 Notebook

4/12 Watch 75 min W07 Thursday AI & stats

Statistical Rethinking 2024

Statistical Rethinking 2024 lectures 3-4 (YouTube, 75 min)

Find it ↗ search

In: LABLOOP-W07 Notebook

7/12 Watch 300 min W07 Saturday Sandbox optional

Karpathy, "Deep Dive into LLMs like ChatGPT"

Saturday sandbox · after DSPy (Stanford NLP) documentation "Optimizers"

Karpathy, "Deep Dive into LLMs like ChatGPT" (YouTube, 3.5 h; watch the first hour on hallucination and tool use)

Find it ↗ search

In: LABLOOP-W07 Notebook

8/12 Watch 15 min? W07 Saturday Sandbox optional

Ninja Nerd "Enzyme kinetics" lecture

Saturday sandbox · after Karpathy, "Deep Dive into LLMs like ChatGPT"

Ninja Nerd "Enzyme kinetics" lecture (YouTube) for Michaelis-Menten in depth

Find it ↗ search

In: LABLOOP-W07 Notebook

4/15 Watch 120 min W08 Thursday AI & stats

Karpathy, "The spelled-out intro to neural networks and backpropagation: building micrograd"

Karpathy, "The spelled-out intro to neural networks and backpropagation: building micrograd" (YouTube, 2 h 25 min; watch the first 75 min Thursday, the rest Saturday while rewriting from memory)

Find it ↗ search

In: LABLOOP-W08 Notebook

6/15 Watch 15 min? W08 Saturday Sandbox optional

3Blue1Brown Neural Networks ch. 3-4 ("Backpropagation, intuitively"

Saturday sandbox · after Kadlec, Gabrys & Strandt (2009), "Data-driven soft sensors in the process industry"

3Blue1Brown Neural Networks ch. 3-4 ("Backpropagation, intuitively" and "Backpropagation calculus")

Find it ↗ search

In: LABLOOP-W08 Notebook

8/15 Watch 15 min? W08 Saturday Sandbox optional

Simon Peyton Jones, "How to write a great research paper"

Saturday sandbox · after Stanford CS231n notes "Backpropagation, intuitions"

Simon Peyton Jones, "How to write a great research paper" (YouTube) — watch now, not in week 18, because the report is a mini-paper

Find it ↗ search

In: LABLOOP-W08 Notebook

1/10 Watch 75 min W09 Tuesday Biology

NPTEL Bioreactors

NPTEL Bioreactors (Suraishkumar, IIT Madras), lectures 1-3 — nptel.ac.in/courses/102106053 (also on YouTube; ~75 min at 1.25x). Notebook: batch, fed-batch and continuous balances

Find it ↗ search

In: LABLOOP-W09 Notebook

2/10 Watch 120 min W09 Thursday AI & stats

Karpathy, "The spelled-out intro to language modeling: building makemore"

Karpathy, "The spelled-out intro to language modeling: building makemore" (YouTube, ~2 h; first 75 min Thursday)

Find it ↗ search

In: LABLOOP-W09 Notebook

3/10 Watch 15 min? W09 Saturday Sandbox optional

MIT OCW 10.37 Chemical and Biological Reaction Engineering

Saturday sandbox

MIT OCW 10.37 Chemical and Biological Reaction Engineering (Spring 2007), lecture notes on bioreactors — ocw.mit.edu/courses/10-37-chemical-and-biological-reaction-engineering-spring-2007

Open ↗

In: LABLOOP-W09 Notebook

5/10 Watch 15 min? W09 Saturday Sandbox optional

LearnChemE "mass balance" screencasts

Saturday sandbox · after Coursera Industrial Biotechnology

LearnChemE "mass balance" screencasts (YouTube)

Find it ↗ search

In: LABLOOP-W09 Notebook

6/10 Watch 60 min W09 Saturday Sandbox optional

Karpathy "Intro to Large Language Models"

Saturday sandbox · after LearnChemE "mass balance" screencasts

Karpathy "Intro to Large Language Models" (YouTube, 1 h) for a bird's-eye view

Find it ↗ search

In: LABLOOP-W09 Notebook

2/11 Watch 75 min W10 Tuesday Biology

NPTEL Bioreactors

NPTEL Bioreactors lectures 4-6 (Monod, yields, maintenance) (75 min)

Find it ↗ search

In: LABLOOP-W10 Notebook

4/11 Watch 15 min? W10 Saturday Sandbox optional

ritvikmath "Gaussian Processes"

Saturday sandbox

ritvikmath "Gaussian Processes" (YouTube, whiteboard intuition)

Find it ↗ search

In: LABLOOP-W10 Notebook

5/11 Watch 15 min? W10 Saturday Sandbox optional

StatQuest "Confidence Intervals, Clearly Explained" and "The Standard Error"

Saturday sandbox · after ritvikmath "Gaussian Processes"

Find it ↗ search

In: LABLOOP-W10 Notebook

3/12 Watch 75 min W11 Tuesday Biology

NPTEL Bioreactors lectures on oxygen transfer

NPTEL Bioreactors lectures on oxygen transfer (kLa), mixing and scale-up (75 min)

Find it ↗ search

In: LABLOOP-W11 Notebook

8/12 Watch 15 min? W11 Saturday Sandbox optional

Brunton "Bayesian optimization" lecture

Saturday sandbox · after NCBI Taxonomy and E-utilities documentation

Brunton "Bayesian optimization" lecture (search in his channel; verify)

Find it ↗ search

In: LABLOOP-W11 Notebook

4/12 Watch 40 min W12 Thursday AI & stats

Brunton & Kutz, Data-Driven Science and Engineering (2nd ed.), ch. 7 on SINDy — databookuw.com (…

Brunton & Kutz, Data-Driven Science and Engineering (2nd ed.), ch. 7 on SINDy — databookuw.com (free PDF) (40 min) + Steve Brunton "Sparse Identification of Nonlinear Dynamics (SINDy)" (YouTube, 30 min)

Open ↗

In: LABLOOP-W12 Notebook

8/12 Watch 15 min? W12 Saturday Sandbox optional

Steve Brunton "Physics Informed Machine Learning" series

Saturday sandbox · after arXiv endorsement page

Steve Brunton "Physics Informed Machine Learning" series (YouTube), first 2 videos

Find it ↗ search

In: LABLOOP-W12 Notebook

6/13 Watch 15 min? W13 Saturday Sandbox optional

Steve Brunton "Neural ODEs"

Saturday sandbox

Steve Brunton "Neural ODEs" (YouTube)

Find it ↗ search

In: LABLOOP-W13 Notebook

9/13 Watch 15 min? W13 Saturday Sandbox optional

Stanford CS197 (cs197.stanford.edu), lecture on "vertical paper structure"

Saturday sandbox · after Karniadakis et al. (2021), "Physics-informed machine learning"

Stanford CS197 (cs197.stanford.edu), lecture on "vertical paper structure" (verify lecture title)

Open ↗

In: LABLOOP-W13 Notebook

2/12 Watch 20 min W14 Tuesday Biology

StatQuest "False Discovery Rates, FDR, clearly explained" and "p-hacking: What it is and how to…

Tuesday · after Modern Statistics for Modern Biology ch. 6 "Testing"

StatQuest "False Discovery Rates, FDR, clearly explained" and "p-hacking: What it is and how to avoid it!" (YouTube, 20 min)

Find it ↗ search

In: LABLOOP-W14 Notebook

3/12 Watch 60 min W14 Thursday AI & stats

Stanford CS336 lecture on evaluation

Stanford CS336 lecture on evaluation (cs336.stanford.edu, videos on Stanford Online YouTube) (60 min); your week 7 notes on Zheng et al. 2023 judge biases (15 min)

Open ↗

In: LABLOOP-W14 Notebook

1/10 Watch 60 min W15 Tuesday Biology

S. Keshav (2007), "How to Read a Paper"

S. Keshav (2007), "How to Read a Paper", ACM SIGCOMM Computer Communication Review 37(3):83-84 (2 pages, 15 min); then three FermLit papers with P11 and IMRaD noted (60 min)

Find it ↗ search

In: LABLOOP-W15 Notebook

6/10 Watch 15 min? W15 Saturday Sandbox optional

StatQuest "Statistical Power, Clearly Explained"

Saturday sandbox · after ASAPbio preprint FAQ

StatQuest "Statistical Power, Clearly Explained" — reviewers may ask whether 50 gold papers is enough

Find it ↗ search

In: LABLOOP-W15 Notebook

3/14 Watch 40 min W16 Tuesday Biology

MIT 6.874 Deep Learning in the Life Sciences

Tuesday · after Lin et al. (2023), "Evolutionary-scale prediction of atomic-level protein structure with a langu…

MIT 6.874 Deep Learning in the Life Sciences (Manolis Kellis, 2021, YouTube playlist), protein lecture (first 40 min)

Find it ↗ search

In: LABLOOP-W16 Notebook

6/14 Watch 8 min W16 Saturday Sandbox optional

DeepMind, "AlphaFold: The making of a scientific breakthrough"

Saturday sandbox · after Rives et al. (2021), "Biological structure and function emerge from scaling unsupervised learnin…

DeepMind, "AlphaFold: The making of a scientific breakthrough" (YouTube, 8 min) — the emotional context of protein AI

Find it ↗ search

In: LABLOOP-W16 Notebook

7/14 Watch 15 min? W16 Saturday Sandbox optional

Nobel Prize in Chemistry 2024 lectures

Saturday sandbox · after DeepMind, "AlphaFold: The making of a scientific breakthrough"

Nobel Prize in Chemistry 2024 lectures (Baker, Hassabis, Jumper) — nobelprize.org

Open ↗

In: LABLOOP-W16 Notebook

8/14 Watch 15 min? W16 Saturday Sandbox optional

Anastasios Angelopoulos' conformal prediction tutorial videos

Saturday sandbox · after Nobel Prize in Chemistry 2024 lectures

Anastasios Angelopoulos' conformal prediction tutorial videos (YouTube; verify)

Find it ↗ search

In: LABLOOP-W16 Notebook

9/14 Watch 15 min? W16 Saturday Sandbox optional

Valence Labs (YouTube), search "ESM" or "protein language models"

Saturday sandbox · after Anastasios Angelopoulos' conformal prediction tutorial videos

Valence Labs (YouTube), search "ESM" or "protein language models" in the M2D2 reading group

Find it ↗ search

In: LABLOOP-W16 Notebook

3/13 Watch 40 min W17 Thursday AI & stats

Hugging Face model card facebook/esm2_t33_650M_UR50D

Hugging Face model card facebook/esm2_t33_650M_UR50D (10 min) + MIT 6.874 protein lecture second half (40 min); code block with ridge head

Find it ↗ search

In: LABLOOP-W17 Notebook

4/13 Watch 15 min? W17 Saturday Sandbox optional

Yang, Wu & Arnold (2019), "Machine-learning-guided directed evolution for protein engineering"

Saturday sandbox

Yang, Wu & Arnold (2019), "Machine-learning-guided directed evolution for protein engineering", Nature Methods 16:687-694. The classic review; read it before week 21

Find it ↗ search

In: LABLOOP-W17 Notebook

5/13 Watch 15 min? W17 Saturday Sandbox optional

Frances Arnold, Nobel Lecture 2018 "Innovation by Evolution: Bringing New Chemistry to Life"

Saturday sandbox · after Yang, Wu & Arnold (2019), "Machine-learning-guided directed evolution for protein engineering"

Frances Arnold, Nobel Lecture 2018 "Innovation by Evolution: Bringing New Chemistry to Life" (nobelprize.org)

Open ↗

In: LABLOOP-W17 Notebook

8/13 Watch 15 min? W17 Craft

StatQuest "Ridge vs Lasso Regression, Visualized!!!"

StatQuest "Ridge vs Lasso Regression, Visualized!!!" (YouTube) for the head you fit

Find it ↗ search

In: LABLOOP-W17 Notebook

1/10 Watch 75 min W18 Tuesday Biology

Two founder or scientific-lead papers from extremophile-focused GridX companies (Puna Bio, Antar…

Two founder or scientific-lead papers from extremophile-focused GridX companies (Puna Bio, Antarka, APEXzymes authors), found via Europe PMC / Google Scholar, digested with P11 (75 min). Background first: Crash Course Biology "Old & Odd: Archaea, Bacteria & Protists" (#35, YouTube, 12 min)

Find it ↗ search

In: LABLOOP-W18 Notebook

2/10 Watch 60 min W18 Thursday AI & stats

Simon Peyton Jones, "How to write a great research paper"

Simon Peyton Jones, "How to write a great research paper" (YouTube, Microsoft Research, ~1 h) + NeurIPS Paper Checklist (neurips.cc, current year's author guidelines) (30 min)

Find it ↗ search

In: LABLOOP-W18 Notebook

6/10 Watch 15 min? W18 Saturday Sandbox optional

Stanford CS197, lecture on "writing the paper"

Saturday sandbox · after Rothschild & Mancinelli (2001), "Life in extreme environments"

Stanford CS197, lecture on "writing the paper" (verify title)

Find it ↗ search

In: LABLOOP-W18 Notebook

4/10 Watch 15 min? W19 Saturday Sandbox optional

MIT 6.874 single-cell lecture

Saturday sandbox · after Single-cell best practices

MIT 6.874 single-cell lecture (Kellis, YouTube)

Find it ↗ search

In: LABLOOP-W19 Notebook

7/10 Watch 30 min W19 Craft

StatQuest "PCA main ideas", "t-SNE, Clearly Explained" and "UMAP Dimension Reduction, Main Ideas…

StatQuest "PCA main ideas", "t-SNE, Clearly Explained" and "UMAP Dimension Reduction, Main Ideas!!!" (YouTube, 30 min) — the three plots every single-cell talk shows

Find it ↗ search

In: LABLOOP-W19 Notebook

5/10 Watch 15 min? W20 Saturday Sandbox optional

Stanford CS197 lecture on research talks and posters

Saturday sandbox · after Richard Hamming, You and Your Research

Stanford CS197 lecture on research talks and posters (verify title)

Find it ↗ search

In: LABLOOP-W20 Notebook

7/10 Watch 60 min W20 Craft

Patrick Winston, "How to Speak"

Patrick Winston, "How to Speak" (MIT OCW / YouTube, ~1 h) — watch Saturday; it prepares both the mock sessions and the talk proposal

Find it ↗ search

In: LABLOOP-W20 Notebook

5/13 Watch 15 min? W21 Saturday Sandbox optional

Valence Labs

Saturday sandbox · after Yang, Wu & Arnold

Valence Labs (YouTube) reading-group talks on protein language models

Find it ↗ search

In: LABLOOP-W21 Notebook

6/13 Watch 15 min? W21 Saturday Sandbox optional

Frances Arnold on iBiology

Saturday sandbox · after Valence Labs

Frances Arnold on iBiology (directed evolution talks; verify)

Find it ↗ search

In: LABLOOP-W21 Notebook

8/13 Watch 15 min? W21 Craft

iBiology, "Uri Alon: How to Choose a Good Scientific Problem"

iBiology, "Uri Alon: How to Choose a Good Scientific Problem" (verify; talk version)

Find it ↗ search

In: LABLOOP-W21 Notebook

1/10 Watch 75 min W22 Tuesday Biology

Brady Neal, Introduction to Causal Inference

Brady Neal, Introduction to Causal Inference, lecture 1 (YouTube) and book ch. 1 (free PDF on the course site) (75 min)

Find it ↗ search

In: LABLOOP-W22 Notebook

2/10 Watch 15 min? W22 Saturday Sandbox optional

Cunningham, Causal Inference: The Mixtape

Saturday sandbox

Cunningham, Causal Inference: The Mixtape — mixtape.scunning.com, ch. 3 (directed acyclic graphs)

Open ↗

In: LABLOOP-W22 Notebook

4/10 Watch 15 min? W22 Saturday Sandbox optional

Coursera A Crash Course in Causality

Saturday sandbox · after Huntington-Klein, The Effect

Coursera A Crash Course in Causality (Penn), week 1

Find it ↗ search

In: LABLOOP-W22 Notebook

6/10 Watch 15 min? W22 Craft

StatQuest "Spearman's Rank Correlation" if needed

StatQuest "Spearman's Rank Correlation" if needed (search; verify) and "Bootstrapping Main Ideas" (carry over)

Find it ↗ search

In: LABLOOP-W22 Notebook

2/9 Watch 15 min? W23 Saturday Sandbox optional

UniProt REST API documentation

Saturday sandbox

UniProt REST API documentation (rest.uniprot.org) and the BRENDA enzyme database (brenda-enzymes.org) for reported temperature optima

Open ↗

In: LABLOOP-W23 Notebook

3/9 Watch 15 min? W23 Saturday Sandbox optional

iBiology talks on extremophiles and enzymes

Saturday sandbox · after UniProt REST API documentation

iBiology talks on extremophiles and enzymes (search; verify)

Find it ↗ search

In: LABLOOP-W23 Notebook

4/9 Watch 15 min? W23 Saturday Sandbox optional

Crash Course Biology #35 "Old & Odd"

Saturday sandbox · after iBiology talks on extremophiles and enzymes

Crash Course Biology #35 "Old & Odd" (carry over)

Find it ↗ search

In: LABLOOP-W23 Notebook

5/9 Watch 15 min W23 Craft

Khan Academy / Crash Course refresh on protein folding and denaturation ("why heat unfolds prote…

Khan Academy / Crash Course refresh on protein folding and denaturation ("why heat unfolds proteins") (15 min)

Find it ↗ search

In: LABLOOP-W23 Notebook

5/12 Watch 15 min? W25 Saturday Sandbox optional

StatQuest on ANOVA and "Design matrices"

Saturday sandbox · after Bambi documentation

StatQuest on ANOVA and "Design matrices" (search in channel)

Find it ↗ search

In: LABLOOP-W25 Notebook

5/11 Watch 15 min? W26 Saturday Sandbox optional

Midani, Collins & Britton (2021), "AMiGA: software for automated analysis of microbial growth as…

Saturday sandbox · after Sprouffske & Wagner

Midani, Collins & Britton (2021), "AMiGA: software for automated analysis of microbial growth assays", mSystems 6:e00508-21 — an open-source Python tool that fits growth curves without assuming their shape (pip install amiga)

Find it ↗ search

In: LABLOOP-W26 Notebook

7/11 Watch 15 min? W26 Saturday Sandbox optional

Khan Academy / LabXchange on spectrophotometry and optical density

Saturday sandbox · after NCATS Assay Guidance Manual

Find it ↗ search

In: LABLOOP-W26 Notebook

3/10 Watch 15 min? W27 Saturday Sandbox optional

David Maister, Charles Green & Robert Galford, The Trusted Advisor

Saturday sandbox

David Maister, Charles Green & Robert Galford, The Trusted Advisor (book, paid) — the trust equation

Find it ↗ search

In: LABLOOP-W27 Notebook

5/10 Watch 15 min? W27 Saturday Sandbox optional

Stanford eCorner (ecorner.stanford.edu) — search talks on "customer discovery"

Saturday sandbox · after Alan Weiss, Value-Based Fees

Stanford eCorner (ecorner.stanford.edu) — search talks on "customer discovery" and "B2B sales for technical founders"

Open ↗

In: LABLOOP-W27 Notebook

7/10 Watch 20 min W27 Craft

Y Combinator Startup School, "How to Talk to Users"

Y Combinator Startup School, "How to Talk to Users" (Eric Migicovsky, YouTube, ~20 min)

Find it ↗ search

In: LABLOOP-W27 Notebook

1/6 Watch 15 min? W28 Saturday Sandbox optional

Getting to Yes

Saturday sandbox

Getting to Yes (Fisher, Ury & Patton; book, paid) — principled negotiation, if price is contested

Find it ↗ search

In: LABLOOP-W28 Notebook

2/6 Watch 15 min? W28 Saturday Sandbox optional

Stanford eCorner talks on first customers

Saturday sandbox · after Getting to Yes

Stanford eCorner talks on first customers (search)

Find it ↗ search

In: LABLOOP-W28 Notebook

4/7 Watch 30 min W29 Craft

Coursera Process Mining: Data Science in Action

Coursera Process Mining: Data Science in Action (Eindhoven), week 1 lecture on event logs (30 min) — cycle time from timestamps is process mining in miniature

Find it ↗ search

In: LABLOOP-W29 Notebook

3/10 Watch 15 min? W30 Tuesday Biology

StatQuest "Statistical Power"

Tuesday · after Cumming (2014) "The new statistics"

StatQuest "Statistical Power" (carry over)

Find it ↗ search

In: LABLOOP-W30 Notebook

4/8 Watch 15 min? W31 Saturday Sandbox optional

Stanford CS197 lecture on co-authoring and feedback

Saturday sandbox · after Target journal author guidelines chosen with the partner

Stanford CS197 lecture on co-authoring and feedback (verify)

Find it ↗ search

In: LABLOOP-W31 Notebook

1/12 Watch 15 min W34 Tuesday Biology

Lewis et al. (2020), "Retrieval-Augmented Generation for Knowledge-Intensive NLP Tasks"

Lewis et al. (2020), "Retrieval-Augmented Generation for Knowledge-Intensive NLP Tasks", NeurIPS, abstract + figure 1 (15 min)

Find it ↗ search

In: LABLOOP-W34 Notebook

2/12 Watch 30 min W34 Tuesday Biology

Es et al. (2023), "RAGAS: Automated Evaluation of Retrieval Augmented Generation"

Tuesday · after Lewis et al. (2020), "Retrieval-Augmented Generation for Knowledge-Intensive NLP Tasks"

Es et al. (2023), "RAGAS: Automated Evaluation of Retrieval Augmented Generation", arXiv:2309.15217 (30 min)

Find it ↗ search

In: LABLOOP-W34 Notebook

3/12 Watch 30 min W34 Tuesday Biology

Stanford CS224N lecture on retrieval/RAG

Tuesday · after Es et al. (2023), "RAGAS: Automated Evaluation of Retrieval Augmented Generation"

Stanford CS224N lecture on retrieval/RAG (web.stanford.edu/class/cs224n; verify current lecture list) (30 min)

Open ↗

In: LABLOOP-W34 Notebook

2/7 Watch 15 min? W37 Saturday Sandbox optional

The Trusted Advisor

Saturday sandbox · after Chip Huyen, Designing Machine Learning Systems

The Trusted Advisor (carry over) for running a pilot relationship

Find it ↗ search

In: LABLOOP-W37 Notebook

1/6 Watch 15 min? W38 Saturday Sandbox optional

Nancy Duarte, "The secret structure of great talks"

Saturday sandbox

Nancy Duarte, "The secret structure of great talks" (TEDx, YouTube)

Find it ↗ search

In: LABLOOP-W38 Notebook

3/6 Watch 60 min W38 Craft

Patrick Winston, "How to Speak"

Patrick Winston, "How to Speak" (MIT OCW / YouTube, ~1 h; re-watch the first 30 min)

Find it ↗ search

In: LABLOOP-W38 Notebook

4/6 Watch 15 min? W38 Craft

Simon Peyton Jones, "How to give a great research talk"

Simon Peyton Jones, "How to give a great research talk" (Microsoft Research, YouTube)

Find it ↗ search

In: LABLOOP-W38 Notebook

1/6 Watch 15 min? W40 Saturday Sandbox optional

Uri Alon's talk and essay on "the cloud" in research

Saturday sandbox

Uri Alon's talk and essay on "the cloud" in research (iBiology; verify)

Find it ↗ search

In: LABLOOP-W40 Notebook

3/6 Watch 30 min W40 Craft

Bill Burnett & Dave Evans, Designing Your Life (book, paid) — chapters on "odyssey plans"

Bill Burnett & Dave Evans, Designing Your Life (book, paid) — chapters on "odyssey plans" and "choosing well"; or Bill Burnett's TEDx talk "Designing Your Life" (YouTube, free) (30 min)

Find it ↗ search

In: LABLOOP-W40 Notebook

⏱ Focus Focus25:00 0 min today