quant.bio PREVIEW	atlas | summaries & slides | oa | support | dvd | contact | about | links	fb | tw | ud | nsdl	Aa | Aa

DVDs

Data DVD+Rs are distributed on a limited basis to help you share the video tutorials when internet connectivity is not possible. Please contact David to see whether DVDs are available.

You can use the following list of version numbers to determine differences between DVDs. Revision numbers containing the Greek letter α are rough. These versions need additional edits for accuracy, clarity, and completeness. The active version history below indicates that the video course is a continuing work, often updated during summers.

Please note that these discs contain MP4 files (video codec: H.264, audio codec: AAC). The format of these discs does not conform to DVD Video or Blu-Ray Disc standards. The videos should play on Windows, Mac, and Linux computers. However, please refer to instruction manuals to determine compatibility with set-top consoles.

Revision 2015-0716α

• Replaced 03-09 MA 1a Mass action.mp4 (12m50s) with version with new voice recording (13m02s).
• Replaced 03-10 MA 1b Cooperativity.mp4 (12m27s) with version with new voice recording (11m58s).
• Replaced 03-11 MA 1c Bistability.mp4 (06m52s) with version with new voice recording (6m32s).

Revision 2015-0128α

• Added 11-08 Macroscopic irreversibility a Microstates explored.mp4 (10m17s).
• Added 11-09 Macroscopic irreversibility b Microscopic reversibility.mp4 (05m06s).
• Added 11-10 Macroscopic irreversibility c Phase space volumes.mp4 (11m08s).
• Added 11-11 Macroscopic irreversibility d Macroscopic irreversibility.mp4 (11m44s).


• Replaced 03-09 MA 1a Mass action.mp4 (12m50s) with same file name and duration, but de-essed.
• Replaced 03-10 MA 1b Cooperativity.mp4 (12m27s) with same file name and duration, but de-essed.
• Replaced 03-11 MA 1c Bistability.mp4 (06m52s) with same file name and duration, but de-essed.


• Replaced 11-01 Stat phys a Postulate.mp4 (06m35s) with same file name, but with some audio in the beginning edited to reduce the length of the file to (06m27s), and de-essed.
• Replaced 11-02 Stat phys b Direct.mp4 (02m21s) with same file name and duration, but de-essed.
• Replaced 11-03 Stat phys c Bath.mp4 (11m36s) with same file name, but slightly shortened (11m35s) to remove a trailing black screen, and de-essed.
• Replaced 11-04 Stat phys d Expectation.mp4 (05m27s) with same file name and duration, but de-essed.


• Replaced 11-05 Ideal chain a.mp4 (04m07s) with same file name and duration, but de-essed.
• Replaced 11-06 Ideal chain b Partition.mp4 (08m41s) with same file name and duration, but de-essed.
• Replaced 11-07 Ideal chain c Expectation.mp4 (16m14s) with same file name and duration, but de-essed.


• Replaced 02-12 Partials.mp4 (06m14s) with same file name, longer duration (extended final silence by a couple seconds to allow moment to land), and de-essed.


• Replaced 00-00 Welcome.mp4 (01m48s) with same file name and duration, but de-essed.


• Replaced 07-01 LA 1a Customer dynamics.mp4 (05m29s) with same file name and duration, but de-essed.
• Replaced 07-02 LA 1b Vectors.mp4 (09m42s) with same file name and duration, but de-essed.
• Replaced 07-03 LA 1c Operators.mp4 (13m25s) with same file name and duration, but de-essed.
• Replaced 07-04 Solution.mp4 (25m11s) with same file name and duration, but de-essed.


• Replaced 08-02 DE 3a mRNA-Protein.mp4 (10m17s) with same file name and duration, but de-essed.
• Replaced 08-03 DE 3b Eigenvectors.mp4 (16m17s) with same file name and duration, but de-essed.
• Replaced 08-04 DE 3c LSA.mp4 (11m48s) with same file name and duration, but de-essed.


• Replaced 07-06 Euler 2 Complex exponentials.mp4 (04m24s) with same file name and duration, but de-essed.


• Replaced 08-01 DE 1 Numerical integration.mp4 (10m16s) with same file name and duration, but de-essed.


• Replaced 05-01 Uncer a Quadrature.mp4 (07m56s) with same file name and duration, but de-essed.


• Replaced 07-05 Quasispecies.mp4 (12m58s) with same file name and duration, but de-essed.

Revision 2014-0929α

• Replaced 01-01 Numbers.mp4 (6m57s) with
  • 01-01 Numbers a Distinct manipulatives vs addresses.mp4 (4m07s)
  • 01-02 Numbers b Bose-Einstein.mp4 (4m40s)
  • 01-03 Numbers c How to illustrate.mp4 (2m27s)
  • 01-04 Numbers d Infinity is not a number.mp4 (1m42s)
  Adjusted subsequent track numbers accordingly.
  
  
• Replaced 03-01 Stochasticity.mp4 (10m27s) with
  • 03-01 Stochasticity a Incommensurate periods.mp4 (5m15s)
  • 03-02 Stochasticity b Practical unpredictability.mp4 (4m29s)
  • 03-03 Stochasticity c Fundamental indeterminism.mp4 (5m03s)
  • 03-04 Stochasticity d Markov processes.mp4 (4m46s)
  Adjusted subsequent track numbers accordingly.
  
  
• Replaced 03-05 Protein translation.mp4 (18m12s) with
  • 03-05 Protein dynamics a Model.mp4 (8m56s)
  • 03-06 Protein dynamics b DE & flowchart.mp4 (9m50s)
  • 03-07 Protein dynamics c Slope-field solution.mp4 (4m12s)
  • 03-08 Protein dynamics d Analytic solution & rise time.mp4 (11m02s)
  Adjusted subsequent track numbers accordingly.
  
  
• Replaced 04-10 CLT b Central limit theorem.mp4 (13m00s) with
  • 04-10 CLT a Central limit theorem statement.mp4 (6m37s)
  • 04-11 CLT b Optional special-case derivation.mp4 (9m01s)
  • 04-12 CLT c Properties of Gaussians.mp4 (3m50s)
  Re-recorded to improve audio narration quality and segmented video into three parts for easier navigation (and to make it easier to skip the optional special-case derivation in the middle track).
  
  
• Replaced 04-11 CLT c Pervasive Gaussians.mp4 (13m10s) with
  • 04-11 Pervasive Gaussians a Physics labs.mp4 (8m25s)
  • 04-12 Pervasive Gaussians b Log-normal biology.mp4 (10m35s)
  Segmented for easier navigation; improved audio.
  
  
• Replaced
  • 05-02 Uncer b Sample estimates.mp4 (9m20s)
  • 05-03 Uncer c Sqrt(n) factor.mp4 (5m27s)
  with
  • 05-02 Uncer b Sample estimates.mp4 (9m21s)
  • 05-03 Uncer c Sqrt(n) factor.mp4 (5m27s)
  Added "(a.s.)" (almost sure) to expressions involving limits of random variables; very minor audio adjustments.
  
  
• Replaced 05-06 Uncer f Curve fit.mp4 (18m35s) with
  • 05-06 Curve fit a Chi-squared.mp4 (8m18s)
  • 05-07 Curve fit b Minimizing chi-squared.mp4 (13m37s)
  • 05-08 Curve fit c Checklist.mp4 (3m44s)
  No adjustment of video track numbers was needed, but the file name for supplemental handout 05-06 Uncer f Supplemental exercise.pdf was changed to 05-08 Curve fit c Supplemental exercise.pdf.
  
  
• Replaced 06-01 Master.mp4 (7m18s) with 06-01 Master.mp4 (7m17s) to fix some minor audio issues (still not great) and to fix a misaligned title on a coversheet. Also edited out a word that made a sentence not quite make sense.
  
  
• Replaced 06-02 SSA.mp4 (16m29s) with 06-02 SSA.mp4 (16m29s) to fix a misaligned title on a coversheet.
  
  
• Replaced 07-07 LA 2 Rotation mtx.mp4 (8m51s) with
  • 07-07 LA 2 Rotations a Rotation mtx.mp4 (4m51s)
  • 07-08 LA 2 Rotations b Complex eigenvalues.mp4 (8m43s)
  Segmented for easier navigation; improved audio.
  
  
• Replaced 08-06 DE 4b Almost LSA.mp4 (3m52s) with 08-06 DE 4b Almost LSA.mp4 (5m55s) to improve audio and describe an almost linear system.
  
  
• Replaced 08-07 DE 5 Oscillations.mp4 (8m55s) with
  • 08-07 DE 5 Oscillations a Romeo & Juliet.mp4 (7m46s)
  • 08-08 DE 5 Oscillations b Twisting nullclines.mp4 (3m41s)
  • 08-09 DE 5 Oscillations c Time delays.mp4 (2m31s)
  • 08-10 DE 5 Oscillations d Stochastic excitation.mp4 (3m48s)
  Segmented for easier navigation; improved audio.
  
  
• Replaced 09-01 Dyn heterogeneity.mp4 (17m35s) with
  • 09-01 Introduction to physical oncology.mp4 (1m54s)
  • 09-02 Dynamic heterogeneity a Stochastic biochemistry.mp4 (6m23s)
  • 09-03 Dynamic heterogeneity b Phenotypic interconversion.mp4 (4m54s)
  • 09-04 Dynamic heterogeneity c Metronomogram.mp4 (8m09s)
  No adjustment of track numbers was needed because chapter 9 contained only a single track before this revision was made.
  
  

Revision 2014-0728α

• Replaced 01-02 Variables.mp4 (14m31s) with a more granular set of five videos for easier navigation, improved vocal narration quality, and mention of the concept of the range of a function. Animations were improved particularly in part b.
  • 01-02 Algebra a Variables.mp4 (5m42s)
  • 01-03 Algebra b Functions.mp4 (4m45s)
  • 01-04 Algebra c Composite functions.mp4 (2m33s)
  • 01-05 Algebra d Inverse functions.mp4 (2m55s)
  • 01-06 Algebra e Square-root function.mp4 (5m15s)
  Adjusted subsequent track numbers accordingly.
  
  
• Replaced 01-08 Geometry a Euclidean.mp4 (5m37s) and 01-09 Geometry b Trigonometry.mp4 (12m34s) with four videos for easier navigation, and to first introduce sine and cosine in relation to the unit circle, rather than using right triangles.
  • 01-08 Geometry a Euclidean.mp4 (5m59s)
  • 01-09 Geometry b Sinea nd cosine on unit circle.mp4 (3m04s)
  • 01-10 Geometry c Approximating pi.mp4 (5m12s)
  • 01-11 Geometry d Right triangles & trig identities.mp4 (6m11s)
  Adjusted subsequent track numbers accordingly.
  
  
• Replaced 02-01 Limits.mp4 (14m12s) with six videos for easier navigation, clearer content/animations, and higher quality vocal narration.
  • 02-01 Limits a Limit of function.mp4 (7m37s)
  • 02-02 Limits b Improper limits.mp4 (3m57s)
  • 02-03 Limits c Limits at infinity.mp4 (3m29s)
  • 02-04 Limits d Infinite limits at infinity.mp4 (3m32s)
  • 02-05 Limits e Limits do not always exist.mp4 (2m40s)
  • 02-06 Limits f Limit proof.mp4 (6m59s)
  Adjusted subsequent track numbers accordingly.
  
  
• Replaced 04-01 Statistics.mp4 (19m07s) with five videos for easier navigation and to improve quality of vocal narration.
  • 04-01 Stat a Distributions & averages.mp4 (5m54s)
  • 04-02 Stat b Identities involving averages.mp4 (3m43s)
  • 04-03 Stat c Variance.mp4 (5m33s)
  • 04-04 Stat d Statistical independence.mp4 (6m26s)
  • 04-05 Stat e Identities from independence.mp4 (7m20s)
  Adjusted subsequent track numbers accordingly.
  
  
• Replaced 04-06 Prob a Bernoulli.mp4 (9m27s) and 04-07 Prob b Poisson.mp4 (7m53s) with three videos for easier navigation and higher quality vocal narration.
  • 04-06 Prob a Bernoulli.mp4 (3m49s)
  • 04-07 Prob b Binomial.mp4 (7m18s)
  • 04-08 Prob c Poisson.mp4 (8m13s)
  Adjusted subsequent track numbers accordingly.
  
  
• Replaced 04-09 Prob c Stirling.mp4 (10m16s) for improved quality of vocal narration. Renamed to group more explicitly with other videos related to the central limit theorem.
  • 04-09 CLT a Stirling.mp4 (11m22s)
• Renamed 04-10 Prob b CLT.mp4 (13m00s) and 04-11 Prob e CLT Pervasive.mp4 (13m10s) to group these videos more obviously with the video describing Stirling's approximation (renamed in the revision immediately above).
  • 04-10 CLT b Central limit theorem.mp4
  • 04-11 CLT c Pervasive Gaussians.mp4
    
    
• Replaced 10-01 CA a Lattice automata.mp4 (3m43s) for improved quality of vocal narration.
  • 10-01 CA a Lattice automata.mp4 (5m46s)

Revision 2013-1228α

• Replaced 02-23 Euler 1g Over x.mp4 (9m17s) with 02-23 Euler 1g Over x.mp4 (3m46s). This video was edited to replace a long and arduous algebraic demonstration that the integral of 1/x dx = ln(x) + C with a much more graphical and faster demonstration based on the fact that x and y are exchanged when converting the plot of exp(x) into a plot of its inverse function ln(x).

Revision 2013-0914α

• Replaced 02-16 Sep var.mp4 (3m15s) with 02-16 Sep var.mp4 (5m48s). This video was edited for better audio quality, better quality of speech practice, and minor edits to visuals.

Revision 2013-0801α

• Replaced 02-08 Taylor.mp4 (17m04s) with
  • 02-08 Power series a Curvature.mp4 (6m54s)
  • 02-09 Power series b General formula.mp4 (13m51s)
  • 02-10 Power series c Sine.mp4 (5m06s)
  • 02-11 Power series d pi.mp4 (4m50s)
• Replaced 02-09 Integrals.mp4 (17m08s) with
  • 02-12 Integrals a Area under curve.mp4 (10m02s)
  • 02-13 Integrals b Fundamental thm 1.mp4 (3m52s)
  • 02-14 Integrals c Fundamental thm 2.mp4 (9m19s)
  • 02-15 Integrals d Change of variables.mp4 (6m28s)
• Shifted track numbers in chapter 2 (calculus) to accommodate changes listed above.

Revision 2013-0715α

• Video 03-08 EGT 2a Repeated games.mp4 (19m20s) added. This video derives population dynamics equations in such a way so that evolutionary game theory models can be understood as describing populations of cells repeatedly playing games and being subject to game outcomes.
• Video 03-09 EGT 2b Time and computation.mp4 (10m58s) added. This video explains that, in some situations, it is possible for repeated simple interactions to achieve results that seem to be related to results that can be achieved through sophisticated computation.

Revision 2013-0523α

• Video 36 Uncer b Sample estimates.mp4 (now 15m37s, previously 14m52s) re-recorded (1) to correct a conceptual error regarding statistical biases in sample estimates of standard deviations (Bessel's correction ensures an unbiased sample variance, not an unbiased sample estimate of standard deviation) and (2) to reduce echo.
• Then re-recorded 36 Uncer b Sample estimates.mp4 (14m52s) again, split into
  • 36 Uncer b Sample estimates.mp4 (9m20s)
  • 37 Uncer c Sqrt(n) factor.mp4 (5m27s)
  • 38 Uncer d Error bar overlap.mp4 (3m23s)
  • Also re-recorded 37 Uncer c Illusory sample size.mp4 (5m21s), which became 39 Uncer e Illusory sample size.mp4 (6m47s)
  These changes address confusion surrounding the words "sample" and "measurements." Track 39 was also edited to include a remark regarding logarithmic scaling along the vertical axis.
• Track listings changed from linear format to DVD-style title-chapter format.
• Euler's number section re-recorded to reduce echo:
  • 02-11 Euler 1a Compound.mp4 (was 6m44s, is now 7m10s)
  • 02-12 Euler 1b To zero.mp4 (was 1m54s, is now 2m06s)
  • 02-13 Euler 1c Multiply.mp4 (was 5m49s, is now 6m05s)
  • 02-14 Euler 1d Add.mp4 (was 5m52s, is now 5m57s)
  • 02-15 Euler 1e Jackson.mp4 (was 1m54s, is now 2m20s)
  • 02-16 Euler 1f Log.mp4 (was 4m34s, is now 5m06s)
  • 02-17 Euler 1g Over x.mp4 (was 7m32s, is now 9m17s)
• Replaced 01-03 Quadratic.mp4 (4m08s) with newer 01-03 Quadratic.mp4 (6m04s). Newer version was recorded with less echo.
• Re-recorded and replaced 01-08 Combinatorics.mp4 (13m28s) to reduce echo and to make navigation easier. Replacement files:
  • 01-08 Combinatorics a Permutations.mp4 (3m20s)
  • 01-09 Combinatorics b Combinations.mp4 (6m59s)
  • 01-10 Combinatorics c Binomial.mp4 (5m05s)
• Re-recorded and replaced 02-02 Differenation.mp4 (27m04s) with the following videos for improved vocal narration quality and to make navigation easier:
  • 02-02 Differenation a Derivative.mp4 (08m47s)
  • 02-03 Differenation b Power rule.mp4 (07m23s)
  • 02-04 Differenation c Chain rule.mp4 (03m54s)
  • 02-05 Differenation d Product rule.mp4 (04m25s)
  • 02-06 Differenation e Sine.mp4 (08m27s)

Revision 2013-0327α

• Video 09 Differentiation.mp4 edited to remove 13 seconds of black screen at end and to clean up minor nuisances in audio.
• Added videos 40 Stoch transcription.mp4 (08m13s) and 41 Stoch transcription & degr.mp4 (14m07s) and bumped track numbers accordingly.
• Replaced video 06 Sums.mp4 (07m19s) with 06 Sums a Notation.mp4 (04m05s)
• Added video 07 Sums b Infinite series.mp4 (04m29s) and bumped track numbers accordingly. Note that 06 Sums a Notation.mp4 and 07 Sums b Infinite Series.mp4 are 960x720 (recorded at 1024x768) to compensate for chroma subsampling that makes red subscripts hard to read. There are similar artifacts elsewhere, but in these videos on summation notation, the artifacts are prevalent.
• Minor revision to video 57 Dyn heterogeneity.mp4 (now 17m35s instead of 17m40s). License converted from CC-BY-NC-SA to CC-BY-SA.

Revision 2013-0201α1

Revision 2013-0201α

© Copyright 2011-2015 David Liao. These videos and slides are open course ware made available under a Creative Commons license (CC BY-SA 4.0). The lightbox and social sharing effects are scripts by Stéphane Caron (CC BY 2.5).