General tree enumeration.

<p>The tree begins at element 0 and continues enumerating the elements following the red arrows. When a terminal element is reached, the enumeration returns to the immediate previous unfinished branch.</p

Time consumptions for the myelinated axon.

<p>The total number of elements is 251,894.</p><p>Time consumptions for the myelinated axon.</p

Performance of the solvers and processors.

<p>a) The myelinated axon is the ideal scenario to exploit the GPU implementation of <i>Neurite</i>, where the time consumptions is reduced from days to minutes. For the dendritic tree b) and the damaged axon c), the GPU implementation did not show any advantage compared to the CPU implementation.</p

Hodgkin-Huxley parameters.

<p><i>Na</i>_<i>v</i> and <i>K</i>_<i>v</i> parameters. Potential and time units are, respectively, <i>mV</i> and <i>ms</i> in this table. Note that </p><p></p><p></p><p></p><p><mi>G</mi><mo>¯</mo></p><p><mi>N</mi><mi>a</mi></p><p></p><p></p><p></p> and <p></p><p></p><p></p><p><mi>G</mi><mo>¯</mo></p><mi>K</mi><p></p><p></p><p></p> are the maximal <i>Na</i>_<i>v</i> and <i>K</i>_<i>v</i> conductances, respectively, and are taken from the original HH model [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0116532#pone.0116532.ref012" target="_blank">12</a>].<p></p><p>Hodgkin-Huxley parameters.</p

PDE model parameters.

<p><i>d</i> and <i>h</i> are the neurite diameter and membrane thickness respectively; the subscript <i>my</i> indicates that the values are for each one of the <i>n</i>_<i>my</i> myelin layers.</p><p>PDE model parameters.</p

General discretization framework.

<p>Each element <i>i</i> (and its corresponding <i>mm</i>) is related to its <i>pa</i>, <i>rc</i>, and <i>lc</i> in the case that <i>i</i> is at a branching point (if not, <i>lc</i> does not exist).</p

APs propagation for healthy and damaged axons.

<p>The decrease in the potential corresponds to a mild axial macroscopic strain (25%) at fast axial strain rate (∼ 400 <i>s</i>⁻¹), see Ref. [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0116532#pone.0116532.ref011" target="_blank">11</a>] for more details.</p

Time consumptions for the damaged axon.

<p>The total number of elements is 525.</p><p>Time consumptions for the damaged axon.</p

Full model.

<p>The mechanical model <b>①</b> transforms the macroscopic strain and strain rate into their microscopic counterparts, which is then used by the coupling model <b>②</b> to modify the parameters of the electrophysiological model <b>③</b> to eventually quantify the functional deficits in the electrical signal propagation (this picture has been reproduced with permission of the authors and the journal of Ref. [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0116532#pone.0116532.ref011" target="_blank">11</a>]).</p

<b>Membrane models</b> (<i>mm</i>) <b>available in <i>Neurite</i></b>.

<p>a) The CT model is used to simulate all passive regions in the neurites, e.g., the IRs in myelinated axons, b) the HH model is used to simulate all active regions in the neurites, e.g., the NRs in myelinated axons.</p