Physical Models of Living Systems, Errata
"Only two things are infinite, the Universe and human stupidity, and I'm not sure about the former." -- Albert Einstein
This list will grow as errata are found.
I'll be grateful to hear of any errors not already on this list.
Thanks, Philip Nelson
Big corrections:
Page 57, Your Turn 3Md: The RSD should be defined as (std x)/||.
Page 108, Fig 5.4a,b: These are actually scaled as discrete distributions (bars sum to 1), not as estimated PDFs (area under curves is not 1).
Page 168 sect 7.5.2 defines "randomness parameter" as (reciprocal of the RSD of waiting time). The usual definition is rather (RSD)**2.
[Schnitzer, M. J., & Block, S. M. (1995). Statistical kinetics of processive enzymes. Cold Spring Harbor Symposia on Quantitative Biology, 60(0), 793--802. http://doi.org/10.1101/sqb.1995.060.01.085]
Page 180 top: The mean-square deviation is proportional to elapsed time, not to square root of time.
Page 222 top: "Suppose that the concentration of nutrient is large enough that c >> K_d" should simply read "Suppose that c >> K_d".
Page 225, Fig 9.12, line 3 of the caption: change:
"Unlike the lac repressor system, TrpR binding permits the repressor..."
to
"Unlike in the lac repressor system, binding of tryptophan (the effector) to its repressor permits the repressor..."
Later in that same caption, the parenthetical remark: change
"must bind to the repressor in order to turn on the gene"
to
"must bind to the repressor in order to turn off the gene"
Page 245, Fig 10.3: The vertical axis actually shows a constant times fraction of maximum beta-gal concentration, that is, arbitrary units are used. (As indicated in the text, the scaling of this axis involves the unknown constant alpha.)
Clarifications and small corrections:
Page 14:
change: "Writing the number produced as (gamma N_I), where"
to
"Writing the number produced per time as (gamma N_I), where"
Page 62, definition of autocorrelation: Although many authors use this definition, the quantity introduced here has dimensions and so, in our conventions, should rather be called "autocovariance."
Problem 3.11 (Smoking and cancer): All probabilities in (a) refer to American males in 1993.
Page 84 Fig 4.7 caption: change:
"If it arises early (second diagram)"
to
"If it arises early (last diagram)"
On page 95, Problem 4.14b: "n=200" should be replaced by "n_0=200".
Page 101, Your Turn 5a: The abbreviation FWHM is defined in Fig 5.1.
Page 154, Fig 7.1 caption: change:
"dragging the red bundle rightward"
to
"dragging the orange bundle rightward"
Page 118, Figure 5.8: The vertical axis label should use the symbol for pdf, not the symbol for discrete distribution.
Page 191, Fig 8.7 caption (a): Should read "during three episodes of transcriptional bursting".
On page 221--223, Equation 9.15: f(c) should be replaced by f(c)/V, where V is the volume of the cell. Equation
9.16 and following formulas: Gamma should be replaced by Gamma/V . This is consistent with equation 10.7, which is correct.
Page 223, Fig 9.11a: The vertical axis shows normalized GFP per cell. The horizontal axis is time after aTc was stepped up. Panel (b): The vertical axis shows normalized active TetR-GFP per cell (see text). The horizontal axis is time after TetR regulation began (see text).
Page 237 top: Should read S = Gamma tau / (V K_d).
Page 247, the worked Example: change "associated linear problem" to "associated homogeneous problem."
On page 275, problem 10.2a: The quantity tabulated in this dataset is not z-bar as stated, but rather z(t)/z_max. The chapter argued that the constant T equals V/Q, but the original authors did not tell us V and Q, so we must obtain T by fitting.
Page 280, Fig. 11.3, top center panel: The length R should be shown as the distance between the two pivots.
Page 287, bottom: change "cyclin B1" to "the cyclin in complex Q".
Spelling etc:
Page 310, footnote 2: change
"F. Jenkins"
to
"F. Jenkin".