Code and Data - Microtubules!

Code and Data

Code

part1_labeled_unlabeled.py | Script for part 1 of the analysis, comparison of labeled vs. unlabeled tubulin.
part2_modeling.py | Script for part 2 of the analysis, comparison of the Gamma and Poisson models.
part3_tubulin.py | Script for part 3 of the analysis, effect of tubulin concentration on time to catastrophe.

Data Sets

Raw Data, Labeled vs. Unlabeled Tubulin | (filetype: .csv)(5 kb)
Raw Data, Varying Tubulin Concentrations | (filetype: .csv)(11 kb)

Figure Generation

Figure 3. ECDFs of time to microtubule catastrophe for labeled and unlabeled tubulin.

Used to generate Figure 3,

Necessary Data Sets
Raw Data, Labeled vs. Unlabeled Tubulin

Figure 4. ECDFs of the bootstrapped mean times to catastrophe obtained for labeled and unlabeled tubulin.

Used to generate Figure 4,

Necessary Data Sets
Raw Data, Labeled vs. Unlabeled Tubulin

Figure 5. ECDFs of the bootstrapped mean times to catastrophe overlaid with theoretical CDFs of the Normal distribution.

Used to generate Figure 5,

Necessary Data Sets
Raw Data, Labeled vs. Unlabeled Tubulin

Figure 6a. 95% confidence intervals calculated by theory.

Used to generate Figure 6,

Necessary Data Sets
Raw Data, Labeled vs. Unlabeled Tubulin

Figure 6b. 95% confidence intervals calculated by bootstrapping from the empirical data.

Used to generate Figure 6,

Necessary Data Sets
Raw Data, Labeled vs. Unlabeled Tubulin

Figure 7a. Predictive ECDFs for the Gamma distribution overlaid with the ECDF of time to microtubule catastrophe.

Used to generate Figure 7,

Necessary Data Sets
Raw Data, Varying Tubulin Concentrations

Figure 7b. Predictive ECDFs for the Poisson distribution overlaid with the ECDF of time to microtubule catastrophe.

Used to generate Figure 7,

Necessary Data Sets
Raw Data, Varying Tubulin Concentrations

Figure 8a. Q-Q plot comparing the model to the empirical data for the Gamma distribution.

Used to generate Figure 8,

Necessary Data Sets
Raw Data, Varying Tubulin Concentrations

Figure 8b. Q-Q plot comparing the model to the empirical data for the Poisson distribution.

Used to generate Figure 8,

Necessary Data Sets
Raw Data, Varying Tubulin Concentrations

Figure 9a. Visualization of the differences between the empirical and predictive ECDFs for the Gamma distribution.

Used to generate Figure 9,

Necessary Data Sets
Raw Data, Varying Tubulin Concentrations

Figure 9b. Visualization of the differences between the empirical and predictive ECDFs for the Poisson distribution.

Used to generate Figure 9,

Necessary Data Sets
Raw Data, Varying Tubulin Concentrations

Figure 10. ECDFs of time to catastrophe at various tubulin concentrations (legend).

Used to generate Figure 10,

Necessary Data Sets
Raw Data, Varying Tubulin Concentrations

Figure 11a. Gamma parameter alpha at various tubulin concentrations.

Used to generate Figure 11,

Necessary Data Sets
Raw Data, Varying Tubulin Concentrations

Figure 11b. Gamma parameter beta at various tubulin concentrations.

Used to generate Figure 11,

Necessary Data Sets
Raw Data, Varying Tubulin Concentrations

Figure 11c. Gamma parameter alpha/beta at various tubulin concentrations.

Used to generate Figure 11,

Necessary Data Sets
Raw Data, Varying Tubulin Concentrations

Table 1. Maximum likelihood estimates of the parameters, log-likelihoods, AICs, and Akaike weights for the Gamma and Poisson distributions at 12 uM tubulin concentration.

Used to generate Table 1,

Necessary Data Sets
Raw Data, Varying Tubulin Concentrations

Table 2. Parameters alpha, beta, and alpha/beta of the Gamma distribution for various tubulin concentrations.

Used to generate Table 2,

Necessary Data Sets
Raw Data, Varying Tubulin Concentrations