We use the Glazier-Graner-Hogeweg model to simulate three-dimensional (3D), single-phenotype, avascular tumors growing in an homogeneous tissue matrix (TM) supplying a single limiting nutrient. We study the effects of two parameters on tumor morphology: a diffusion-limitation parameter defined as the ratio of the tumor-substrate consumption rate to the substrate-transport rate, and the tumor-TM surface tension. This initial model omits necrosis and oxidative/hypoxic metabolism effects, which can further influence tumor morphology, but our simplified model still shows significant parameter dependencies. The diffusion-limitation parameter determines whether the growing solid tumor develops a smooth (noninvasive) or fingered (invasive) interface, as in our earlier two-dimensional (2D) simulations. The sensitivity of 3D tumor morphology to tumor-TM surface tension increases with the size of the diffusion-limitation parameter, as in 2D. The 3D results are unexpectedly close to those in 2D. Our results therefore may justify using simpler 2D simulations of tumor growth, instead of more realistic but more computationally expensive 3D simulations. While geometrical artifacts mean that 2D sections of connected 3D tumors may be disconnected, the morphologies of 3D simulated tumors nevertheless correlate with the morphologies of their 2D sections, especially for low-surface-tension tumors, allowing the use of 2D sections to partially reconstruct medically-important 3D-tumor structures.
Citation: Poplawski NJ, Shirinifard A, Agero U, Gens JS, Swat M, Glazier JA (2010) Front Instabilities and Invasiveness of Simulated 3D Avascular Tumors. PLoS ONE 5(5): e10641. https://doi.org/10.1371/journal.pone.0010641
Editor: Gustavo Stolovitzky, IBM Thomas J. Watson Research Center, United States of America
Received: November 5, 2009; Accepted: April 13, 2010; Published: May 26, 2010
Copyright: © 2010 Poplawski et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
Funding: This work was supported in part by National Institutes of Health, National Institute of General Medical Sciences grants R01 GM76692 and R01 GM077138, the Biocomplexity Institute at Indiana University and the Indiana University Faculty Research Support Program. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
Competing interests: The authors have declared that no competing interests exist.
In  we studied the effects of nutrient limitation and surface tension in a simplified two-dimensional (2D) model of tumor invasion using the Glazier-Graner-Hogeweg (GGH) (also known as the Cellular Potts Model) –, as implemented in the CompuCell3D (CC3D) modeling environment –. In 2D, the selection of smooth-interface (noninvasive) vs. fingered (invasive) growth depends on the tumor's substrate-consumption rate per unit substrate-transport rate, the diffusion-limitation parameter , while the detailed morphology also depends on the tumor-tissue-matrix (TM) surface tension . Lack of competition for nutrients promotes spherical, noninvasive tumors. Low concentrations of nutrients in the environment which cause tumor-cell competition, or cells with a very high substrate-consumption rate generate a fingering instability and irregular, invasive tumors. Our results agree with in vitro experiments showing that tumors branch into the surrounding tissues if the nutrient supply is too small , , and with other tumor-model predictions –.
Our three-dimensional (3D) model extension of our 2D model , includes growing, spatially-extended tumor cells, surrounding TM represented as a nondiffusing field secreting nutrients, a diffusing field representing matrix-degrading enzymes (MDEs) that degrade TM, and a diffusing nutrient field (substrate) which governs the rate of tumor-cell growth. As in our 2D model we assume that all tumor cells are identical in their capacities and responses, and that the specific growth rate of tumor cells increases linearly with the local concentration of a single limiting substrate, with no concentration threshold for tumor cells to grow.
For a detailed discussion of tumor initiation and progression, see  and . Growth of avascular tumor spheroids depends on diffusion of nutrients and waste products, usually limiting the spheroid's maximum size, as discussed in . Tumors can be benign (noninvasive) or malignant (invasive). Most tumors are initially noninvasive and gradually become more invasive as they reduce their cell-cell adhesiveness and (often) increase their cell-extracellular-matrix (ECM) adhesiveness . Tumor cells can secrete MDEs that degrade the ECM which maintains the integrity of normal tissues – and modifies the distribution in the ECM of molecules to which cells adhere, e.g., fibronectin, increasing effective cell motility , –. Intrinsic cell motility can also increase during tumor progression –.
Hypoxia (a shortage of oxygen)  activates transcription of the met proto-oncogene , which increases levels of the Met tyrosine kinase, a receptor for hepatocyte growth factor (HGF) –. HGF is a scatter factor  that coordinates a number of specific cytokines  which weaken cell-cell contacts and increase cell motility , . Thus hypoxia indirectly enhances HGF-induced cell motility , . Hypoxia can also induce epithelial-mesenchymal transitions (EMT)  through Notch signaling , one of the initial steps in metastasis, transforming nonmotile, epithelial cells into migratory and invasive cells, e.g., through down-regulation of E-cadherin , .
Mathematical models of tumor growth  range from simple fitting of experimental data on the growth kinetics of tumor spheroids using various growth laws  to more complex simulations of tumor-induced angiogenesis and capillary network formation , –, and tumor spreading at early  and later invasive stages , –. Continuum and solid-mechanics models –, – consider physical forces among cells and TM, capturing tumor structure at the tissue level, but do not describe the tumor's cellular and subcellular properties, making mechanisms such as cell-cell adhesion difficult to include. Point-cell models (cellular automata) allow stochastic descriptions at cellular – and subcellular levels ,  but neglect the shapes of cells. Hybrid multi-cell models combine discrete representations of individual tumor cells with continuum representations of diffusible chemicals – and either discrete or continuum models of the surrounding tissue. For comprehensive reviews of mathematical models of tumor growth see ,  and references therein.
Three recent models of tumor growth have analyzed tumor-growth morphologies in a two-dimensional parameter phase space. The model of  analyzed nonlinear tumor morphological response to two nondimensional parameters representing the balance of cell death to birth and tissue mechanics (proliferation-induced pressure), the model of  analyzed fragmenting and compact morphologies in the nutrient-adhesion phase space, and the model of  analyzed the fragmenting, fingering, and compact morphologies in the nutrient-mechanics phase space.
In our recent 2D GGH simulations of growing avascular tumors  we found that smaller tumor-TM surface tension speeds diffusion of tumor cells and that simulated substrate-deprived tumor morphologies are more sensitive to variations in tumor-TM surface tension. These results agree with the observation that hypoxia enhances the sensitivity of tumor cell motility to scatter factors, and suggest an experimentally-testable hypothesis that HGF decreases tumor-TM surface tension, which we could measure, e.g., using compression apparatus –. They also agree with a recent study of the analogy between branching instabilities in a growing tumor and instabilities in a drop of water impacting a solid surface, which suggested promoting tumor cell-tumor cell adhesion as a clinical strategy in oncological therapies .
As in , we do not model explicitly the haptotactic repulsion and pressure on the tumor cells from the surrounding normal tissue. Thus our simulated tumor cells move freely, which is realistic only for environments that do not constrain tumor-cell motility, such as idealized gliomas or those growing in mechanically unconfined areas, e.g. in vitro , . However, the tumor-TM surface tension creates an effective hydrostatic pressure on the tumor. While not identical to a tumor growing in an elastic or viscoelastic tissue, increasing the surface tension reproduces many of the effects of increasing the rigidity of an explicitly-modeled external tissue.
Necrosis can be essential to instability mechanisms at later stages of tumor growth, destabilizing the shape of the tumor . While diffusional instabilities lead to fingering morphologies, the connecting portions of the fingers experience necrosis due to prolonged hypoxia and anoxia, leading to a disconnection of the fingers and a fragmented morphology. Necrosis becomes biologically significant when hypoxia of a layer of cells surrounding the necrotic core of the tumor triggers a cascade of signals mediated by hypoxia-inducible factor-1 (HIF-1)  and vascular endothelial growth factor (VEGF) , which initiate angiogenesis, i.e. tumor vascularization, by inducing growth and extension of nearby blood vessels. Since we focus on the role of cell-cell adhesion and competition for nutrients at the tumor-TM interface where the tumor cells are alive and proliferating, as in , we simulate single-cell-type avascular tumors without angiogenesis, omitting necrotic and quiescent cells, which are absent at the tumor-TM interface during early stages of fingering. While necrosis certainly has a profound effect on the late-stage morphology of fingered tumors, its primary effect on the instabilities we are studying is to reduce the competition for substrate, thus changing the values for the onset of different instabilities. Since the degree of shift depends on details of the necrotic mechanism, we feel that studying the effects of nutrient limitation separately from the effects necrosis is clearer. We will combine the effects in a later paper. We do not model quiescence explicitly because the substrate concentration in the central regions of our simulated tumors is nearly zero, so the cells there barely grow (see Mathematical Structure of the Tumor Model), effectively behaving like quiescent cells.
In this paper we extend our 2D model of tumor-interface instabilities to more realistic 3D tumors. We find that our results for our 3D simulations agree with our 2D results, which is surprising because certain relationships, such as mutually penetrating connected structures, cannot exist in 2D. Such structures form in real tumors during neoangiogenesis , during which tumors recruit blood vessels from the surrounding vascular network to supply nutrients and remove waste. We need to understand the physics of instabilities in growing avascular 3D tumors before we proceed to investigate how and affect vascular tumors undergoing neoangiogenesis, extending the recent GGH simulations in .
We aim to answer two questions: 1) what causes front instabilities and invasiveness in 3D avascular tumors? and 2) can we reconstruct medically-important 3D tumor structures from 2D sections? We hypothesize that hypoxia and surface tension will have similar effects on tumor morphology in 2D and 3D simulations (which is not obvious a priori). We show that the diffusion-limitation parameter determines whether the 3D tumor has a uniform or fingered margin, while the tumor-TM surface tension affects the detailed tumor morphology, as in 2D. We construct a phase diagram showing the effects of these parameters on simulated 3D avascular tumors and their 2D sections. Although geometrical artifacts mean that the 2D sections of many connected 3D simulated tumors are disconnected, the morphologies of 3D simulated tumors nevertheless correlate strongly with the morphologies of their 2D sections, especially at later stages, allowing the use of 2D sections to partially reconstruct 3D tumor structures.
We can describe tumor morphologies in terms of their sphericity ,(1)where is the volume of an object and is its surface area. Sphericity is a computationally convenient measure of how round an object is for 3D images. We study the time dependence of the sphericity of simulated tumors as a function of and . As in , we call structures with pronounced orientational order dendritic, and structures without apparent orientational order seaweed-like or diffusion-limited-aggregation-like (DLA-like). We also study how changes in and affect the time at which the middle 2D section of the simulated tumor reaches the boundary of the simulation domain, and the conditions under which the simulated tumor stops proliferating before reaching this boundary. Because 2D sections of real tumors are more convenient to analyze medically, we also measure the circularity ,(2)where is the perimeter of an object, in our case, of the middle 2D sections of the simulated tumors, and compare it with the sphericity for the corresponding 3D images. If the sphericity of a 3D simulated tumor corresponds to the circularity of its 2D section, analysis of 2D sections of real tumors may allow us to reconstruct their 3D morphology, helping to determine whether they are invasive or not, and possibly predicting the effectiveness of antiangiogenic therapies.
Small () corresponds to a growth-limited regime , . The substrate penetrates most of the tumor and reaches most cells, so the simulated tumor remains spherical . Larger slows the growth of the tumor (since the local substrate concentration decreases in the presence of tumor cells), and diffusing substrate penetrates fewer cell diameters past the surface layer of the tumor. Initially, substrate is present throughout the tumor, which grows in all directions. As the tumor grows, its cells consume substrate and the substrate concentration develops a gradient, the concentration increasing in the radial direction away from the tumor centroid. Locally, cells near the tumor surface in protruding regions experience higher concentrations of substrate and hence grow faster than others. These cells proliferate more quickly, while the cells in the narrow valleys, where the interface between the tumor and TM lags significantly behind the furthest local radial position of the tumor, experience low concentrations of substrate and slow their growth. Figure 1 shows the time evolution of a simulated tumor with (which is near the value corresponding to the parameters used in ), for (a), (b), (c), and (d). The simulated tumors are dense, fast-growing and initially spherical. As they grow, their tumor-TM interfaces become slightly irregular (grooved) (the lower , the rougher the surface of the developing tumor) but remain compact.
(a) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor is initially spherical; it then becomes slightly irregular. Fourth row: 3D visualization of the same simulation. (b) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor is initially spherical; it then becomes grooved. Fourth row: 3D visualization of the same simulation. (c) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor is initially spherical; it then becomes grooved. Fourth row: 3D visualization of the same simulation. (d) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor is initially spherical; it then becomes grooved with a rough surface. Fourth row: 3D visualization of the same simulation. The simulation time is indicated in days beneath each column, where 1 day = 400 MCS.
Large corresponds to a transport-limited or diffusion-limited regime , . The substrate penetrates only a short distance into the tumor, so the tumor grows more slowly than for smaller values of . Figure 2 shows the time evolution of simulated tumors with , for (a), (b), (c), and (d). For high TM-tumor surface tensions, the simulated tumors are compact and dendritic (with anisotropic branches), while for low TM-tumor surface tensions, the simulated tumors are DLA-like (with isotropic branches), as in our previous 2D simulations . The effect of surface tension on morphology is more dramatic for larger , again as in 2D . Figure 3 shows the time evolution of simulated tumors with , for (a), (b), (c), and (d).
(a) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor is initially compact; it then becomes dendritic. The disconnected parts in the last image connect to the backbone of the tumor out of the section plate. Fourth row: 3D visualization of the same simulation. (b) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor is initially compact; it then becomes dendritic. The disconnected parts in the last two images connect to the backbone of the tumor out of the section plate. Fourth row: 3D visualization of the same simulation. (c) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor is initially compact with a rough surface; it then becomes seaweed-like. The disconnected parts in the last two images connect to the backbone of the tumor out of the section plate. Fourth row: 3D visualization of the same simulation. (d) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor is seaweed-like with a rough surface. The disconnected parts in the images connect to the backbone of the tumor out of the section plate. Fourth row: 3D visualization of the same simulation. The simulation time is indicated in days beneath each column, where 1 day = 400 MCS.
(a) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor is initially compact; it then becomes dendritic. The disconnected parts in the last two images connect to the backbone of the tumor out of the section plate. Fourth row: 3D visualization of the same simulation. (b) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor becomes dendritic. The disconnected parts in the last two images connect to the backbone of the tumor out of the section plate. Fourth row: 3D visualization of the same simulation. (c) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor has a form intermediate between dendrite and seaweed. The disconnected parts in the images connect to the backbone of the tumor out of the section plate. Fourth row: 3D visualization of the same simulation. (d) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor is seaweed-like. The disconnected parts in the images connect to the backbone of the tumor out of the section plate. Fourth row: 3D visualization of the same simulation. The simulation time is indicated in days beneath each column, where 1 day = 400 MCS.
At for a high surface tension, , the tumor occupies a region with a high concentration of MDE that has degraded all the TM Field. TM far from the tumor still produces substrate, but the substrate is essentially exhausted at the tumor surface. The availability of nutrients is so limited that cell proliferation nearly stops; the simulated tumor does not reach the boundary of the simulation domain (Figure 4 (a)). For a lower surface tension, , the simulated tumor does reach the boundary of the simulation domain but so many cells stop dividing that some branches of the dendritic tumor stop growing (Figure 4 (b)). Figures 4 (c) and 4 (d) show the time evolution of simulated tumors for and , respectively. For such low surface tensions, DLA-like structures form.
(a) . 2D sections of a 3D simulation along the XY plane. The developing tumor remains compact and ceases proliferating. We do not show 2D sections along the XZ and YZ planes because they are essentially indistinguishable from those along the XY plane. We do not show 3D visualization of the same simulation because it does not provide any new information about the simulated tumor. (b) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor forms a truncated dendrite. The disconnected parts in the last image connect to the backbone of the tumor out of the section plate. Fourth row: 3D visualization of the same simulation. (c) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor has a form intermediate between dendrite and seaweed, with thinner fingers. The disconnected parts in the images connect to the backbone of the tumor out of the section plate. Fourth row: 3D visualization of the same simulation. (d) . 2D sections of a 3D simulation along the XY (first row), XZ (second row) and YZ plane (third row). The developing tumor forms a seaweed. The disconnected parts in the images connect to the backbone of the tumor out of the section plate. Fourth row: 3D visualization of the same simulation. The simulation time is indicated in days beneath each column, where 1 day = 400 MCS.
Figure 1 shows that, for small , the substrate reaches most cells, which grow in all directions, no valleys form and the tumor-TM interface remains smooth. As we increase , the substrate penetrates less deeply into the tumor. Cells near the tumor surface experience higher concentrations of substrate and proliferate more quickly, producing fingers, while the space between fingers fills slowly or not at all with new cells, as Figures 2–4 show. Thus the competition for substrate between tumor cells results in a fingering instability , – which generates a fingered tumor morphology . Table 1 shows the mean circularity , defined as the average of the circularities of 2D sections of 3D tumors taken at the midplanes XY, XZ and YZ, for different values of and at the moment when the tumor reaches the boundaries of the simulation domain (6 mm). Figure 5 summarizes the morphologies and shows the sphericity of 3D tumors for different values of and at the moment when the tumor reaches the boundaries of the simulation domain (6 mm). Although the 2D sections of many simulated tumors are disconnected, the underlying 3D tumors are connected (except for where a few cells migrate out of the backbone of the tumor). Thus the disconnectedness of tumors simulated in 2D results from the underlying physics of growth and diffusion and provides fundamental information about the growth dynamics, while the disconnectedness of 2D sections of connected 3D simulated tumors is a geometrical artifact and does not provide much information beyond indicating a rough tumor surface.
The standard deviation for is less than 0.02. The panel for and is blank because the corresponding tumor never grows to this size.
Sphericity increases with surface tension and decreases with increasing (the structure for and deviates from this general behavior because its growth is truncated). These dependencies of are consistent with our observation that competition for substrate favors branching instabilities while surface tension stabilizes the tumor-TM interface, as in 2D . Table 2 shows how the sphericity of simulated tumors with 1000 Generalized Cells (which represent real tumor cells) depends on and . Figure 6 shows how the sphericity of simulated tumors, when they reach the boundaries of the simulation domain (a) or contain 1000 Generalized Cells (b), depends on surface tension for different . This dependence, more monotonic for a fixed number of cells than for a fixed size, suggests that the mass of the tumor, which is proportional to the number of tumor cells, is a more accurate description of the tumor stage than its size.
(a) When they reach the boundary of the simulation domain, (b) with 1000 Generalized Cells.
Table 1 and Figure 5 show that the sphericity of 3D simulated tumors and the mean circularity of their 2D sections differ by 0.05 or less, except for and (truncated growth) and for and . The sphericity is smaller than the mean circularity , except for and . Our results indicate a close relationship between the numerical values of and for a given tumor and provide a simple method for partial reconstruction of 3D tumor structure from 2D sections: the sphericity of a real 3D tumor of a size on the order of a millimeter approximately equals the mean circularity of the 2D sections taken at the midplanes XY, XZ and YZ through the 3D tumor. This partial reconstruction is the first step in determining the 3D tumor's morphology, and thus potentially has medical value in predicting its behavior.
Figures 7 and 8 show that the sphericity of 3D simulated tumors and the mean circularity of their 2D sections both decrease in time for all and . varies less with than does. The curves for at , and for at lie close to each other, indicating that does not strongly affect how the sphericity of simulated low-surface-tension tumors changes in time. The curve for and deviates from the curves for the other s because tumor growth is truncated. We do not show the curve for and because the simulated tumor does not grow. The curves are more concave (have larger slopes) for lower surface tensions. The absolute value of the difference between and for almost all simulated tumors initially increases in time and then decreases, as Figure 9 shows (except for , where it is not monotonic and remains small). Also, decreases with . Therefore, reconstructing 3D tumor structure from 2D sections is more accurate for avascular tumors either at very early or at later stages, and is more accurate for low-surface-tension tumors which grow faster and thus are medically relevant.
Table 3 shows how the time at which the simulated tumor reaches the boundary of the simulation domain, which has a size of 6 mm, depends on and . The smaller the tumor-TM surface tension, , the faster the growth of the tumor, because for large , tumor cells must diffuse to find substrate to maintain their growth rather than having substrate diffuse to reach them. The smaller , the larger the diffusion coefficient of the tumor cells . Small surface tension enhances spreading of the tumor cells, so the tumor grows continuously. This result agrees with experiments showing that less adhesive tumors grow faster . Table 4 shows how the time at which the simulated tumor grows to 1000 cells depends on and .
Almost all the curves in Figure 8 have a quasi-Gaussian profile. Thus we can fit them to a function of form , where and are constants. The characteristic time then characterizes how fast the tumor develops fingers and thus is a useful way to characterize tumor morphology dynamics. Table 5 shows as a function of and . Sensitivity of simulated-tumor morphology dynamics to changes in decreases with increasing in the growth-limited regime, then increases with increasing in the diffusion-limited regime, in agreement with experiments showing that hypoxia enhances the sensitivity of diffusion-limited tumors to scatter factors which increase cells' motility , .
We have shown that whether a simulated growing 3D tumor develops a smooth or fingered interface depends primarily on , in agreement with in vitro experimental observations in , where tumor spheroids embedded in a 3D collagen matrix in hypoxic conditions developed a branched tubular structure, while in normoxic conditions they remained unbranched, confirming the previous results of  and recent studies employing different modeling approaches , , . The transition from a smooth to fingered interface for GGH-simulated 3D avascular tumors occurs between and , while for GGH-simulated 2D avascular tumors it occurs between and . The transition regions overlap, which shows that the fingering instability is essentially dimension-independent and justifies using simpler 2D models of tumor growth instead of computationally expensive 3D models. Our GGH simulations of biofilm growth showed that changing the vertical dimension of the simulation domain, , greatly affected biofilm morphology, because was proportional to in those simulations. However, changing and keeping constant by changing, for instance, the background concentration of substrate did not significantly affect biofilm morphology . Since the interaction between the growing tumor and the substrate does not depend on the boundaries of the simulation domain, is a convenient parameter to define tumor-morphology regimes. In our simulations, we set the size of the cubic simulation domain to the order of the typical size of avascular tumors, so is an accurate, relative measure of how much the tumor cells compete for substrate.
Figures 1–5 show that while the tumor-TM surface tension does not affect the overall morphology significantly for low , its effect grows for higher . For low , the tumor cells near the tumor-TM interface grow fast enough to find more substrate. For larger , they grow more slowly, and in order to maintain their growth, they must migrate to reach substrate. The results of our 3D simulations agree with hypoxia's observed enhancement of the sensitivity of tumor cell motility to scatter factors, and support the hypothesis we suggested in  that HGF decreases tumor-TM surface tension.
2D simulated tumors  were partially disconnected for and for larger . Our 3D simulated tumors always remain connected (except again for where a few cells migrate out of the backbone of the tumor), although their 2D sections appear disconnected in most cases. The ratio , where is the at which simulated tumors at high surface tensions cease to grow or produce truncated dendrites and is the at which simulated tumors are roughly spherical, is about 5–7 in both 2D  and 3D. Thus the range in which spans all morphological regimes is very similar in 3D and 2D, i.e. 3D simulated tumors are as sensitive to competition for substrate as 2D tumors, which again justifies using simpler 2D models of tumor growth instead of more realistic, but computationally expensive 3D models.
While the diffusion-limitation parameter determines whether the tumor has a uniform or fingered margin, the tumor-TM surface tension affects the detailed tumor morphology. These effects are also visible in 2D sections of simulated 3D tumors. Also as in 2D, the sensitivity of 3D tumor morphology to tumor-TM surface tension increases with , causing a directional-solidification-like transition at high between dendritic structures, produced when the tumor-TM surface tension is high, and seaweed-like or DLA-like structures, produced when is low. Thus our 3D results support the idea, suggested in  and supported by our 2D simulations  and several other studies , , , that we need to therapeutically suppress cell motility and increase tumor cell-tumor cell adhesion when targeting tumor angiogenesis, in order to prevent the spread of tumor cells because of substrate deprivation.
Using a cubic lattice for our GGH simulations may introduce artifacts related to anisotropic spatial evolution of the simulated tumor, which can influence high-rank tensor observables. Such artifacts are of limited significance in our simulations, but do appear to a limited extent in Figure 1 (a), and more prevalently in Figures 2 (a), 2 (b), 3 (a) and 3 (b). In general, anisotropy is significant for large values of tumor-TM surface tension (large ), though the anisotropy does not appear to affect our general results. In these cases, we plan to cross-check our conclusions concerning orientational observables, such as dendritic orientation, with simulations on a higher-symmetry hexagonal lattice.
As in , we coarse-grained tumor cells to speed our simulations. Thus our Generalized Cells represent tumor-cell clusters, describing the averaged behavior of many cells. Although our model discretizes tumors at approximately the same spatial resolution as continuum methods, it introduces surface energy and cell adhesion in a correct, physical manner. Moreover, the inclusion of cells as extended and deformable objects will allow us to study in the future the effects of elasticity on simulated tumor morphology.
In our study of the effects of and on tumor growth we did not include quiescence and necrosis explicitly. Because the substrate concentration in the central regions of our simulated tumors is nearly zero, we would expect the cells there to behave like quiescent cells (no growth). We repeated our simulations with quiescence for and , both with . To simulate quiescence, we impose a rule that a tumor cell stops growing, consuming substrate and producing MDE if the substrate concentration inside the cell drops below a threshold . Figures 10 (a) and 10 (b) show the morphologies of 2D sections of 3D tumors with quiescence for and , respectively. These morphologies are slightly more compact than the corresponding structures in Figures 1 (c) and Figure 2 (c). The tumors reach the boundaries of the simulation domain (6 mm) after 14 days () and 26 days (). Their mean circularities at the moment when the tumors reach the boundaries of the simulation domain are slightly larger than without quiescence, and . This difference arises because quiescent cells do not grow and do not consume substrate, reducing the competition for substrate. The net effect is slightly faster growth (for ) than without quiescence and morphologies corresponding to smaller values of .
(a) 2D sections of 3D simulations with quiescence with . (b) 2D sections of 3D simulations with quiescence with . Green - proliferating cells, blue - quiescent cells. (c) 2D sections of 3D simulations with necrosis with . (d) 2D sections of 3D simulations with necrosis with . Green - proliferating cells, red - necrotic cells.
We also repeated our simulations with necrosis for and , both with . To simulate necrosis, we impose a rule that a tumor cell stops consuming substrate and producing MDE and shrinks (grows with a negative growth rate ) if the substrate concentration inside the cell drops below . Figures 10 (c) and 10 (d) show the morphologies of 2D sections of 3D tumors with necrosis for and , respectively. These morphologies do not differ appreciably from the corresponding structures in Figure 1 (c) and Figure 2 (c). The tumors reach the boundaries of the simulation domain (6 mm) after 14 days () and 28 days (). Their mean circularities at the moment when the tumors reach the boundaries of the simulation domain are slightly larger than without necrosis, and . This difference arises because necrotic cells do not grow and do not consume substrate, reducing the competition for substrate. The net effect is slightly faster growth (for ) than without necrosis (but slower than with quiescence) and morphologies corresponding to slightly smaller values of . In addition, as we would expect, at late times, the tumors are more fragmented than without necrosis, which could affect their biomedically significant degree of invasiveness. However, at early times, tumor morphologies are essentially indistinguishable with and without necrosis. We will examine effects of quiescence and necrosis in more detail in a future paper.
While we recognize that most tumors are much more complex than our simple simulations, our goal was to understand the physics of the initial phase of the fingering instability as a function of the tumor-cell adhesivity and substrate consumption rate. We have shown that in 3D simulations, which are more expensive computationally, the physics of front instabilities and invasiveness in GGH-simulated tumors is the same as in 2D simulations (which was not obvious a priori). Therefore, our results justify using simpler 2D models of tumor growth instead of 3D models in some cases. We also found that the sphericity of 3D simulated tumors of a size on the order of a few mm (the typical size that avascular tumors reach) correlates strongly with the mean circularity of their 2D sections, especially for faster-growing, low-surface-tension tumors. Our results suggest that analyzing 2D sections of real avascular tumors at later stages should allow us to reconstruct the morphology of the underlying 3D tumors for use in tumor staging and guidance of therapeutic choices.
In future work, we will check for lattice artifacts and coarse-graining effects, and study the effects of necrosis and hypoxia-dependent growth rates on the morphological instability of growing tumors. We also plan to study the sensitivity of the tumor morphology to the other parameters in the simulations and the variability of morphology from replica to replica.
Mathematical Structure of the Tumor Model
We have discussed our model in detail in  and review it very briefly here. In our simplified solid, avascular tumor model, cells are spatially extended and deformable, move, adhere to each other, consume substrate, grow at a rate proportional to the local substrate concentration, divide when their volume doubles, and secrete MDE. Our choice of biological mechanisms follows our recent 2D model , which simplifies the HDC model of .
We use the GGH model – to represent tumor cells. As in , , we include three fields: a TM field representing a homogenized version of the cells and ECM of the normal tissue surrounding the tumor, an MDE field produced by tumor cells, which degrades the TM field, and a substrate field representing the concentration of a substrate limiting tumor-cell growth. The equations for these fields are the same as in . MDE (denoted by , which ranges between 0 and 1) degrades TM (denoted by , which ranges between 0 and 1) according to ,  (equation (1) in ):(3)where is a positive constant. Degradation does not consume MDE and MDE does not decay. However, the maximum MDE concentration is 1, which effectively imposes a decay in regions of high concentration. Tumor cells produce MDE at a constant rate (the rate of MDE production per tumor cell); MDE then diffuses uniformly (equation (2) in ):(4)where is the diffusion constant of MDE. equals 1 inside tumor cells, otherwise it is 0. To model the transport of nutrient in surrounding normal tissue, TM produces substrate at a constant rate per unit density. We denote the substrate concentration as a fraction of the maximum soluble concentration , so we require . The substrate diffuses and is consumed by the tumor cells at a constant rate per cell (equation (3) in ). Including saturation:(5)where , and are positive constants representing respectively the substrate-diffusion constant, the substrate-production rate per unit TM and the substrate-consumption rate per tumor cell, and is the Heaviside step function. The substrate-consumption rate for the normalized substrate field is:(6)Initially , and everywhere.
In  we showed that 2D-tumor morphology depended mainly on a single parameter, the nondimensional ratio of the maximum tumor-growth rate to the maximum substrate-transport rate: the Diffusion-Limitation Parameter (equation (8) in ):(7)where is the size of the simulation domain and is the maximum specific growth rate (amount of new tumor produced per unit time per unit tumor). We vary by varying . Cells grow by increasing their volume at a rate proportional to the local substrate concentration.
GGH Implementation of the Tumor Model
For a detailed description of GGH simulations, see  and . For additional information on CC3D and open-source downloads of CC3D software for Windows, Mac OSX and Linux platforms, please visit: http://www.compucell3d.org/.
In our simulation, Generalized Cells are spatially-extended domains, which represent either tumor cells or non-tumor tissue and reside on a single 3D, square Cell Lattice , . Generalized Cells carry state descriptors, e.g., cells' target volumes and volumes at which mitosis occurs. Fields are continuously-variable concentrations, each of which resides on its own lattice, here diffusing MDE and substrate, and nondiffusing TM, evolving according to equations (3), (4) and (5). The Effective Energy creates forces which determine a Generalized Cell's shape, motility, adhesion and response to extracellular signals .
We denote the unique index of a Generalized Cell by , where the value at a Cell-Lattice site (voxel) is if this site lies in Generalized Cell . Each Generalized Cell has an associated Generalized-Cell type . In our model, TM denotes tissue medium and t tumor cells.
The Effective Energy in our tumor simulations includes three terms –:(8)The first term describes the surface adhesion between Generalized Cells in terms of Contact Energies –. The units of in 3D are energy/unit boundary surface area. We use a fourth-neighbor interaction range (32 neighbors for each voxel) to calculate the Contact Energies, which reduces Cell-Lattice anisotropy effects . The second term constrains the Generalized Cells' volumes; is the volume in Cell-Lattice sites of Generalized Cell , its Target Volume, and its inverse compressibility. The third term represents the elasticity of a cell membrane; is the surface area of Generalized Cell , its Target Surface Area, and its inverse membrane elasticity. We model TM as one unconstrained Generalized Cell: .
To model cell motility, the Cell Lattice evolves through stochastic attempts by Generalized Cells to extend their boundaries into neighboring Cell-Lattice sites, slightly displacing the Generalized Cells which currently occupy those sites –. At each step, we randomly select a Cell-Lattice site and attempt to change its index from to the index of a Cell-Lattice site randomly chosen in its fourth-order neighborhood. If the difference in Effective Energy produced by the change then we accept the change. If then we accept the change with a probability :(10)where represents the cell's intrinsic cytoskeletally-driven mot ility. One Monte Carlo Step (MCS) corresponds to attempts, where is the total number of Cell-Lattice sites.
The dimension of our Cell Lattice in voxels is . In our simulations, each simulated tumor cell (Generalized Cell of type ) initially occupies a voxel cube. The initial 3D configuration of these simulations consists of 8 Generalized Cells of type forming a cube in the middle of the simulation domain. We set the linear size of 1 voxel to 60 , which is on the order of the scale in , so the size of the simulation domain corresponds to 6 mm. Therefore the linear size of 1 simulated tumor cell is 180 , which is about 7 times greater than the size of real tumor cells , , , so 1 simulated tumor cell represents real tumor cells. Since the size of tumor cells is much smaller than the substrate-penetration and capillary lengths (see ), the cell size is not critical. Coarse-graining the cells greatly speeds our simulations. Since is dimensionless, its value is independent of our choice of length scale.
We simulate growth of tumor cells by increasing their at a rate proportional to the local limiting-substrate concentration at the cell's center of mass , , , :(11)where is a growth rate. For tumor cells, the initial . When a tumor cell reaches the doubling volume , it divides and splits along a random axis into two tumor cells (of the same phenotype) with Target Volumes . To prevent growing cells from changing shape, we adjust so that the nondimensional ratio remains constant, i.e. . We set , which produces roughly spherical cells. Since we do not set a substrate-concentration threshold for cells to grow, all cells can proliferate. However, the substrate concentration in the inner part of the growing tumor spheroid is nearly zero. Thus only tumor cells near the surface of the spheroid grow appreciably, while cells in the middle of the spheroid effectively do not grow during the duration of the simulation.
As in , we define three Fields: 1) diffusible substrate , 2) diffusing MDE , 3) nondiffusing TM . These Fields can have nonzero values at each point simultaneously and co-occupy space with cells.
Tumor cells produce MDE at a constant rate at the cell's center of mass. Tumor cells absorb substrate at their respective centers of mass. Substrate and MDE diffuse uniformly on their Field lattices using a forward-Euler algorithm. If 1 voxel corresponds to meters and 1 MCS to seconds then, for example, (in ) relates to the physical diffusion constant of substrate (in ) via: . In our simulations, we use no-flux boundary conditions at all Field edges.
To the best of our knowledge, no one has measured the adhesion parameters for a tumor cell line, although measurement should be possible –. Because the Contact Energy between two Cell-Lattice sites that belong to the same Generalized Cell is defined to be zero, we set all positive to prevent Generalized Cells from dissociating. We also require to keep the tumor cells from floating off into the TM spontaneously. Following our previous paper, our simulations use and , and vary from 4, for which , to 16, for which . For , the simulated morphologies do not differ much from those for . We set and , which prevents Generalized Cells from nonbiological disappearing or freezing.
As in our earlier paper, we take and . For , the diffusion constant for our simulated tumor cells is about , as in our previous 2D simulations, so 400 MCS corresponds to approximately 1 day and .
The remaining parameters come from : , (which we denote ), , , , , and . We define the production and consumption parameters per Generalized Cell, so they are the same for both 2D and 3D. We also set and . Equation (7) gives, for , . Since MDE diffusion is very slow and TM degradation by MDE is strong, at all voxels occupied by tumor cells and at all voxels occupied by TM.
We vary from 0.05 to 0.2, corresponding approximately to varying from 50 to 200, which covers the complete range of possible simulated-tumor morphologies. Smaller values of produce the same patterns as and values of greatly slow or even halt tumor-cell proliferation. Table 6 lists our model parameters.
Analyzed the data: NJP AS UA. Wrote the paper: NJP JSG JAG. Conceived and designed the simulations: NJP JAG. Performed the simulations: NJP. Conceived and designed the data analysis: NJP AS UA JAG. Contributed software and analysis tools: AS UA MS.
- 1. Popławski NJ, Agero U, Gens JS, Swat M, Glazier JA, et al. (2009) Front instabilities and invasiveness of simulated avascular tumors. Bull Math Biol 71: 1189.NJ PopławskiU. AgeroJS GensM. SwatJA Glazier2009Front instabilities and invasiveness of simulated avascular tumors.Bull Math Biol711189
- 2. Graner F, Glazier JA (1992) Simulation of biological cell sorting using a two-dimensional extended Potts model. Phys Rev Lett 69: 2013.F. GranerJA Glazier1992Simulation of biological cell sorting using a two-dimensional extended Potts model.Phys Rev Lett692013
- 3. Glazier JA, Graner F (1993) Simulation of the differential adhesion driven rearrangement of biological cells. Phys Rev E 47: 2128.JA GlazierF. Graner1993Simulation of the differential adhesion driven rearrangement of biological cells.Phys Rev E472128
- 4. Glazier JA, Balter A, Popławski NJ (2007) Magnetization to morphogenesis: a brief history of the Glazier-Graner-Hogeweg model. In: Anderson ARA, Chaplain MAJ, Rejniak KA, editors. Single-Cell-Based Models in Biology and Medicine, Birkhäuser-Verlag. 79 p.JA GlazierA. BalterNJ Popławski2007Magnetization to morphogenesis: a brief history of the Glazier-Graner-Hogeweg model.ARA AndersonMAJ ChaplainKA RejniakSingle-Cell-Based Models in Biology and Medicine, Birkhäuser-Verlag79
- 5. Chaturvedi R, Izaguirre JA, Huang C, Cickovski T, Virtue P, et al. (2003) Multi-model simulations of chicken limb morphogenesis. Lect Notes Comput Sci 2659: 39.R. ChaturvediJA IzaguirreC. HuangT. CickovskiP. Virtue2003Multi-model simulations of chicken limb morphogenesis.Lect Notes Comput Sci265939
- 6. Izaguirre JA, Chaturvedi R, Huang C, Cickovski T, Coffland J, et al. (2004) CompuCell, a multi-model framework for simulation of morphogenesis. Bioinformatics 20: 1129.JA IzaguirreR. ChaturvediC. HuangT. CickovskiJ. Coffland2004CompuCell, a multi-model framework for simulation of morphogenesis.Bioinformatics201129
- 7. Chaturvedi R, Huang C, Izaguirre JA, Newman SA, Glazier JA, et al. (2004) A hybrid discrete-continuum model for 3-D skeletogenesis of the vertebrate limb. Lect Notes Comp Sci 3305: 543.R. ChaturvediC. HuangJA IzaguirreSA NewmanJA Glazier2004A hybrid discrete-continuum model for 3-D skeletogenesis of the vertebrate limb.Lect Notes Comp Sci3305543
- 8. Chaturvedi R, Huang C, Kazmierczak B, Schneider T, Izaguirre JA, et al. (2005) On multiscale approaches to three-dimensional modeling of morphogenesis. J Roy Soc Interf 2: 237.R. ChaturvediC. HuangB. KazmierczakT. SchneiderJA Izaguirre2005On multiscale approaches to three-dimensional modeling of morphogenesis.J Roy Soc Interf2237
- 9. Cickovski TM, Huang C, Chaturvedi R, Glimm T, Hentschel HGE, et al. (2005) A framework for three-dimensional simulation of morphogenesis. IEEE/ACM Trans Comp Biol Bioinf 2: 1.TM CickovskiC. HuangR. ChaturvediT. GlimmHGE Hentschel2005A framework for three-dimensional simulation of morphogenesis.IEEE/ACM Trans Comp Biol Bioinf21
- 10. Swat MH, Hester SD, Balter AI, Heiland RW, Zaitlen BL, et al. (2009) Multicell simulations of development and disease using the CompuCell3D simulation environment. In: Maly IV, editor. Systems Biology, Humana. 361 p.MH SwatSD HesterAI BalterRW HeilandBL Zaitlen2009Multicell simulations of development and disease using the CompuCell3D simulation environment.IV MalySystems Biology, Humana361
- 11. Maranchie JK, Vasselli JR, Riss J, Bonifacino JS, Linehan WM, et al. (2002) The contribution of VHL substrate binding and HIF1-α to the phenotype of VHL loss in renal cell carcinoma. Cancer Cell 1: 247.JK MaranchieJR VasselliJ. RissJS BonifacinoWM Linehan2002The contribution of VHL substrate binding and HIF1-α to the phenotype of VHL loss in renal cell carcinoma.Cancer Cell1247
- 12. Pennacchietti S, Michieli P, Galluzzo M, Mazzone M, Giordano S, et al. (2003) Hypoxia promotes invasive growth by transcriptional activation of the met protooncogene. Cancer Cell 3: 347.S. PennacchiettiP. MichieliM. GalluzzoM. MazzoneS. Giordano2003Hypoxia promotes invasive growth by transcriptional activation of the met protooncogene.Cancer Cell3347
- 13. Alarcon T, Byrne HM, Maini PK (2003) A cellular automaton model for tumour growth in inhomogeneous environment. J Theor Biol 225: 257.T. AlarconHM ByrnePK Maini2003A cellular automaton model for tumour growth in inhomogeneous environment.J Theor Biol225257
- 14. Frieboes HB, Zheng X, Sun C, Tromberg B, Gatenby R, et al. (2006) An integrated computational/experimental model of tumor invasion. Cancer Res 66: 1597.HB FrieboesX. ZhengC. SunB. TrombergR. Gatenby2006An integrated computational/experimental model of tumor invasion.Cancer Res661597
- 15. Cristini V, Lowengrub J, Nie Q (2003) Nonlinear simulation of tumor growth. J Math Biol 46: 191.V. CristiniJ. LowengrubQ. Nie2003Nonlinear simulation of tumor growth.J Math Biol46191
- 16. Cristini V, Frieboes HB, Gatenby R, Caserta S, Ferrari M, et al. (2005) Morphologic instability and cancer invasion. Clin Cancer Res 11: 6772.V. CristiniHB FrieboesR. GatenbyS. CasertaM. Ferrari2005Morphologic instability and cancer invasion.Clin Cancer Res116772
- 17. Macklin P, Lowengrub J (2007) Nonlinear simulation of the effect of microenvironment on tumor growth. J Theor Biol 245: 677.P. MacklinJ. Lowengrub2007Nonlinear simulation of the effect of microenvironment on tumor growth.J Theor Biol245677
- 18. Cristini V, Li X, Lowengrub JS, Wise SM (2009) Nonlinear simulations of solid tumor growth using a mixture model: invasion and branching. J Math Biol 58: 723.V. CristiniX. LiJS LowengrubSM Wise2009Nonlinear simulations of solid tumor growth using a mixture model: invasion and branching.J Math Biol58723
- 19. Weinberg RA (2006) The Biology of Cancer. Garland..RA Weinberg2006The Biology of CancerGarland.
- 20. Trédan O, Galmarini CM, Patel K, Tannock IF (2007) Drug resistance and the solid tumor microenvironment. J Natl Cancer Inst 99: 1441.O. TrédanCM GalmariniK. PatelIF Tannock2007Drug resistance and the solid tumor microenvironment.J Natl Cancer Inst991441
- 21. Huang S, Ingber DE (1999) The structural and mechanical complexity of cell-growth control. Nat Cell Biol 1: E131.S. HuangDE Ingber1999The structural and mechanical complexity of cell-growth control.Nat Cell Biol1E131
- 22. Lawrence JA, Steeg PS (1996) Mechanisms of tumour invasion and metastasis. World J Urol 14: 124.JA LawrencePS Steeg1996Mechanisms of tumour invasion and metastasis.World J Urol14124
- 23. Liotta LA, Rao CN, Barsky SH (1983) Tumour invasion and the extracellular matrix. Lab Invest 49: 636.LA LiottaCN RaoSH Barsky1983Tumour invasion and the extracellular matrix.Lab Invest49636
- 24. Stetler-Stevenson WG, Aznavoorian S, Liotta LA (1993) Tumor cell interactions with the extracellular matrix during invasion and metastasis. Annu Rev Cell Biol 9: 541.WG Stetler-StevensonS. AznavoorianLA Liotta1993Tumor cell interactions with the extracellular matrix during invasion and metastasis.Annu Rev Cell Biol9541
- 25. Carter SB (1965) Principles of cell motility: the direction of cell movement and cancer invasion. Nature 208: 1183.SB Carter1965Principles of cell motility: the direction of cell movement and cancer invasion.Nature2081183
- 26. Quigley JP, Lacovara J, Cramer EB (1983) The directed migration of B-16 melanoma-cells in response to a haptotactic chemotactic gradient of fibronectin. J Cell Biol 97: A450.JP QuigleyJ. LacovaraEB Cramer1983The directed migration of B-16 melanoma-cells in response to a haptotactic chemotactic gradient of fibronectin.J Cell Biol97A450
- 27. Lacovara J, Cramer EB, Quigley JP (1984) Fibronectin enhancement of directed migration of B16 melanoma cells. Cancer Res 44: 1657.J. LacovaraEB CramerJP Quigley1984Fibronectin enhancement of directed migration of B16 melanoma cells.Cancer Res441657
- 28. McCarthy JB, Furcht LT (1984) Laminin and fibronectin promote the directed migration of B16 melanoma cells in vitro. J Cell Biol 98: 1474.JB McCarthyLT Furcht1984Laminin and fibronectin promote the directed migration of B16 melanoma cells in vitro.J Cell Biol981474
- 29. Klominek J, Robert KH, Sundqvist KG (1993) Chemotaxis and haptotaxis of human malignant mesothelioma cells: effects of fibronectin, laminin, type iv collagen, and an autocrine motility factor-like substance. Cancer Res 53: 4376.J. KlominekKH RobertKG Sundqvist1993Chemotaxis and haptotaxis of human malignant mesothelioma cells: effects of fibronectin, laminin, type iv collagen, and an autocrine motility factor-like substance.Cancer Res534376
- 30. Debruyne PR, Bruyneel EA, Karaguni I-M, Li X, Flatau G, et al. (2002) Bile acids stimulate invasion and haptotaxis in human corectal cancer cells through activation of multiple oncogenic signalling pathways. Oncogene 21: 6740.PR DebruyneEA BruyneelI-M KaraguniX. LiG. Flatau2002Bile acids stimulate invasion and haptotaxis in human corectal cancer cells through activation of multiple oncogenic signalling pathways.Oncogene216740
- 31. Hynes RO (1992) Integrins: versatility, modulation, and signalling in cell adhesion. Cell 69: 11.RO Hynes1992Integrins: versatility, modulation, and signalling in cell adhesion.Cell6911
- 32. Clark EA, Brugge JS (1995) Integrins and signal transduction pathways: the road taken. Science 268: 233.EA ClarkJS Brugge1995Integrins and signal transduction pathways: the road taken.Science268233
- 33. Burridge K, Chrzanowska-Wodnicka M (1996) Focal adhesions, contractability, and signalling. Annu Rev Cell Dev Biol 12: 463.K. BurridgeM. Chrzanowska-Wodnicka1996Focal adhesions, contractability, and signalling.Annu Rev Cell Dev Biol12463
- 34. Harris AL (2002) Hypoxia - a key regulatory factor in tumor growth. Nat Rev Cancer 2: 38.AL Harris2002Hypoxia - a key regulatory factor in tumor growth.Nat Rev Cancer238
- 35. Nakamura T, Teramoto H, Ichihara A (1986) Purification and characterization of a growth factor from rat platelets for mature parenchymal hepatocytes in primary cultures. Proc Natl Acad Sci USA 83: 6489.T. NakamuraH. TeramotoA. Ichihara1986Purification and characterization of a growth factor from rat platelets for mature parenchymal hepatocytes in primary cultures.Proc Natl Acad Sci USA836489
- 36. Nakamura T, Nishizawa T, Hagiya M, Seki T, Shimonishi M, et al. (1989) Molecular cloning and expression of human hepatocyte growth factor. Nature 342: 440.T. NakamuraT. NishizawaM. HagiyaT. SekiM. Shimonishi1989Molecular cloning and expression of human hepatocyte growth factor.Nature342440
- 37. Rubin JS, Bottaro DP, Aaronson SA (1993) Hepatocyte growth factor/scatter factor and its receptor, the c-met proto-oncogene product. Biochim Biophys Acta 1155: 357.JS RubinDP BottaroSA Aaronson1993Hepatocyte growth factor/scatter factor and its receptor, the c-met proto-oncogene product.Biochim Biophys Acta1155357
- 38. Trusolino L, Comoglio PM (2002) Scatter-factor and semaphorin receptors: cell signalling for invasive growth. Nature Rev Cancer 4: 289.L. TrusolinoPM Comoglio2002Scatter-factor and semaphorin receptors: cell signalling for invasive growth.Nature Rev Cancer4289
- 39. Liotta LA, Kohn EC (2001) The microenvironment of the tumour-host interface. Nature 411: 375.LA LiottaEC Kohn2001The microenvironment of the tumour-host interface.Nature411375
- 40. Stoker N, Gherardi E, Perryman M, Grey J (1987) Scatter factor is a fibroblast-derived modulator of epithelial cell motility. Nature 327: 239.N. StokerE. GherardiM. PerrymanJ. Grey1987Scatter factor is a fibroblast-derived modulator of epithelial cell motility.Nature327239
- 41. Gherardi E, Gray J, Stoker M, Perryman M, Furlong R (1989) Purification of scatter factor, a fibroblast-derived basic protein that modulates epithelial interactions and movement. Proc Natl Acad Sci USA 86: 5844.E. GherardiJ. GrayM. StokerM. PerrymanR. Furlong1989Purification of scatter factor, a fibroblast-derived basic protein that modulates epithelial interactions and movement.Proc Natl Acad Sci USA865844
- 42. Condeelis J, Singer RH, Segall JE (2005) The great escape: When cancer cells hijack the genes for chemotaxis and motility. Annu Rev Cell Dev Biol 21: 695.J. CondeelisRH SingerJE Segall2005The great escape: When cancer cells hijack the genes for chemotaxis and motility.Annu Rev Cell Dev Biol21695
- 43. Christofori G (2006) New signals from the invasive front. Nature 441: 444.G. Christofori2006New signals from the invasive front.Nature441444
- 44. Sahlgren C, Gustafsson MV, Jin S, Poellinger L, Lendahl U (2008) Notch signaling mediates hypoxia-induced tumor cell migration and invasion. Proc Natl Acad Sci USA 105: 6392.C. SahlgrenMV GustafssonS. JinL. PoellingerU. Lendahl2008Notch signaling mediates hypoxia-induced tumor cell migration and invasion.Proc Natl Acad Sci USA1056392
- 45. Huber MA, Kraut N, Beug H (2005) Molecular requirements for epithelial-mesenchymal transition during tumor progression. Curr Opin Cell Biol 17: 548.MA HuberN. KrautH. Beug2005Molecular requirements for epithelial-mesenchymal transition during tumor progression.Curr Opin Cell Biol17548
- 46. Lee JM, Dedhar S, Kalluri R, Thompson EW (2006) The epithelial-mesenchymal transition: New insights in signaling, development, and disease. J Cell Biol 172: 973.JM LeeS. DedharR. KalluriEW Thompson2006The epithelial-mesenchymal transition: New insights in signaling, development, and disease.J Cell Biol172973
- 47. Chaplain MAJ (1996) Avascular growth, angiogenesis and vascular growth in solid tumours: the mathematical modelling of the stages of tumour development. Math Comput Model 23: 47.MAJ Chaplain1996Avascular growth, angiogenesis and vascular growth in solid tumours: the mathematical modelling of the stages of tumour development.Math Comput Model2347
- 48. Wheldon TE (1986) Mathematical models in experimental and clinical oncology. In: Ingram D, Bloch RF, editors. Mathematical Methods in Medicine. London: J. Wiley and Sons. 1 p.TE Wheldon1986Mathematical models in experimental and clinical oncology.D. IngramRF BlochMathematical Methods in MedicineLondonJ. Wiley and Sons1
- 49. Anderson ARA, Chaplain MAJ (1998) Continuous and discrete mathematical models of tumourinduced angiogenesis angiogenesis. Bull Math Biol 60: 857.ARA AndersonMAJ Chaplain1998Continuous and discrete mathematical models of tumourinduced angiogenesis angiogenesis.Bull Math Biol60857
- 50. Plank MJ, Sleeman BD (2004) Lattice and non-lattice models of tumour angiogenesis. Bull Math Biol 66: 1785.MJ PlankBD Sleeman2004Lattice and non-lattice models of tumour angiogenesis.Bull Math Biol661785
- 51. Owen MR, Alarcon T, Maini PK, Byrne HM (2009) Angiogenesis and vascular remodelling in normal and cancerous tissues. J Math Biol 58: 689.MR OwenT. AlarconPK MainiHM Byrne2009Angiogenesis and vascular remodelling in normal and cancerous tissues.J Math Biol58689
- 52. Shirinifard A, Gens JS, Zaitlen BL, Popławski NJ, Swat M, et al. (2009) 3D multi-cell simulation of tumor growth and angiogenesis. PLoS ONE 4: e7190.A. ShirinifardJS GensBL ZaitlenNJ PopławskiM. Swat20093D multi-cell simulation of tumor growth and angiogenesis.PLoS ONE4e7190
- 53. Sherratt JA, Nowak MA (1992) Oncogenes, anti-oncogenes and the immune response to cancer: a mathematical model. Proc R Soc Lond B 248: 261.JA SherrattMA Nowak1992Oncogenes, anti-oncogenes and the immune response to cancer: a mathematical model.Proc R Soc Lond B248261
- 54. Orme ME, Chaplain MAJ (1996) A mathematical model of vascular tumour growth and invasion. Math Comput Model 23: 43.ME OrmeMAJ Chaplain1996A mathematical model of vascular tumour growth and invasion.Math Comput Model2343
- 55. Perumpanani AJ, Sherratt JA, Norbury J, Byrne HM (1996) Biological inferences from a mathematical model of malignant invasion. Invasion Metastasis 16: 209.AJ PerumpananiJA SherrattJ. NorburyHM Byrne1996Biological inferences from a mathematical model of malignant invasion.Invasion Metastasis16209
- 56. Anderson ARA, Chaplain MAJ, Newman EL, Steele RJC, Thompson AM (2000) Mathematical modelling of tumour invasion and metastasis. J Theor Med 2: 129.ARA AndersonMAJ ChaplainEL NewmanRJC SteeleAM Thompson2000Mathematical modelling of tumour invasion and metastasis.J Theor Med2129
- 57. Byrne HM, Chaplain MAJ, Pettet GJ, McElwain DLS (1999) A mathematical model of trophoblast invasion. J Theor Med 1: 275.HM ByrneMAJ ChaplainGJ PettetDLS McElwain1999A mathematical model of trophoblast invasion.J Theor Med1275
- 58. Zheng X, Wise SM, Cristini V (2005) Nonlinear simulation of tumor necrosis, neo-vascularization and tissue invasion via an adaptive finite-element/level-set method. Bull Math Biol 67: 211.X. ZhengSM WiseV. Cristini2005Nonlinear simulation of tumor necrosis, neo-vascularization and tissue invasion via an adaptive finite-element/level-set method.Bull Math Biol67211
- 59. Chaplain MAJ, Sleeman BD (1993) Modelling the growth of solid tumours and incorporating a method for their classification using nonlinear elasticity theory. J Math Biol 31: 431.MAJ ChaplainBD Sleeman1993Modelling the growth of solid tumours and incorporating a method for their classification using nonlinear elasticity theory.J Math Biol31431
- 60. Tracqui P (1995) From passive diffusion to active cellular migration in mathematical models of tumour invasion. Acta Biotheor 43: 443.P. Tracqui1995From passive diffusion to active cellular migration in mathematical models of tumour invasion.Acta Biotheor43443
- 61. Frieboes HB, Lowengrub JS, Wise S, Zheng X, Macklin P, et al. (2007) Computer simulation of glioma growth and morphology. Neuroimage 37: S59.HB FrieboesJS LowengrubS. WiseX. ZhengP. Macklin2007Computer simulation of glioma growth and morphology.Neuroimage37S59
- 62. Li XR, Cristini V, Nie Q, Lowengrub JS (2007) Nonlinear three-dimensional simulation of solid tumor growth. Discr Cont Dyn Syst Ser B 7: 581.XR LiV. CristiniQ. NieJS Lowengrub2007Nonlinear three-dimensional simulation of solid tumor growth.Discr Cont Dyn Syst Ser B7581
- 63. Kimmel M, Axelrod DE (1991) Unequal cell division, growth regulation and colony size of mammalian cells: a mathematical model and analysis of experimental data. J Theor Biol 153: 157.M. KimmelDE Axelrod1991Unequal cell division, growth regulation and colony size of mammalian cells: a mathematical model and analysis of experimental data.J Theor Biol153157
- 64. Smolle J, Stettner H (1993) Computer simulation of tumour cell invasion by a stochastic growth model. J Theor Biol 160: 63.J. SmolleH. Stettner1993Computer simulation of tumour cell invasion by a stochastic growth model.J Theor Biol16063
- 65. Qi A, Zheng X, Du C, An B (1993) A cellular automaton model of cancerous growth. J Theor Biol 161: 1.A. QiX. ZhengC. DuB. An1993A cellular automaton model of cancerous growth.J Theor Biol1611
- 66. Kansal AR, Torquato S, Harsh GR, Chiocca EA, Deisboeck TS (2000) Simulated brain tumor growth using a three-dimensional cellular automaton. J Theor Biol 203: 367.AR KansalS. TorquatoGR HarshEA ChioccaTS Deisboeck2000Simulated brain tumor growth using a three-dimensional cellular automaton.J Theor Biol203367
- 67. Dormann S, Deutsch A (2002) Modeling of self-organized avascular tumor growth with a hybrid cellular automaton. In Silico Biol 2: 0035.S. DormannA. Deutsch2002Modeling of self-organized avascular tumor growth with a hybrid cellular automaton.In Silico Biol20035
- 68. Düchting W (1990) Tumor growth simulation. Comput Graph 14: 505.W. Düchting1990Tumor growth simulation.Comput Graph14505
- 69. Düchting W, Ulmer W, Ginsberg T (1996) Cancer: a challenge for control theory and computer modelling. Eur J Cancer 32A: 1283.W. DüchtingW. UlmerT. Ginsberg1996Cancer: a challenge for control theory and computer modelling.Eur J Cancer32A1283
- 70. Anderson ARA (2005) A hybrid mathematical model of solid tumour invasion: the importance of cell adhesion. Math Med Biol 22: 163.ARA Anderson2005A hybrid mathematical model of solid tumour invasion: the importance of cell adhesion.Math Med Biol22163
- 71. Rejniak KA (2005) A single-cell approach in modeling the dynamics of tumor microregions. Math Biosci Eng 2: 643.KA Rejniak2005A single-cell approach in modeling the dynamics of tumor microregions.Math Biosci Eng2643
- 72. Zhang L, Athale CA, Deisboeck TS (2007) Development of a three-dimensional multiscale agent-based tumor model: simulating gene-protein interaction profiles, cell phenotypes and multicellular patterns in brain cancer. J Theor Biol 244: 96.L. ZhangCA AthaleTS Deisboeck2007Development of a three-dimensional multiscale agent-based tumor model: simulating gene-protein interaction profiles, cell phenotypes and multicellular patterns in brain cancer.J Theor Biol24496
- 73. Wang Z, Zhang L, Sagotsky J, Deisboeck TS (2007) Simulating non-small cell lung cancer with a multiscale agent-based model. Theor Biol Med Model 4: 50.Z. WangL. ZhangJ. SagotskyTS Deisboeck2007Simulating non-small cell lung cancer with a multiscale agent-based model.Theor Biol Med Model450
- 74. Wang Z, Birch CM, Sagotsky J, Deisboeck TS (2009) Cross-scale, cross-pathway evaluation using an agent-based non-small cell lung cancer model. Bioinformatics 25: 2389.Z. WangCM BirchJ. SagotskyTS Deisboeck2009Cross-scale, cross-pathway evaluation using an agent-based non-small cell lung cancer model.Bioinformatics252389
- 75. Sanga S, Frieboes HB, Zheng X, Gatenby R, Bearer EL, et al. (2007) Predictive oncology: a review of multidisciplinary, multiscale in silico modeling linking phenotype, morphology and growth. Neuroimage 37: S120.S. SangaHB FrieboesX. ZhengR. GatenbyEL Bearer2007Predictive oncology: a review of multidisciplinary, multiscale in silico modeling linking phenotype, morphology and growth.Neuroimage37S120
- 76. Macklin P, McDougall S, Anderson AR, Chaplain MAJ, Cristini V, et al. (2009) Multiscale modelling and nonlinear simulation of vascular tumour growth. J Math Biol 58: 765.P. MacklinS. McDougallAR AndersonMAJ ChaplainV. Cristini2009Multiscale modelling and nonlinear simulation of vascular tumour growth.J Math Biol58765
- 77. Beysens DA, Forgacs G, Glazier JA (2000) Embryonic tissues are viscoelastic materials. Can J Phys 78: 243.DA BeysensG. ForgacsJA Glazier2000Embryonic tissues are viscoelastic materials.Can J Phys78243
- 78. Foty RA, Forgacs G, Pfleger CM, Steinberg MS (1994) Liquid properties of embryonic tissues: measurement of interfacial tensions. Phys Rev Lett 72: 2298.RA FotyG. ForgacsCM PflegerMS Steinberg1994Liquid properties of embryonic tissues: measurement of interfacial tensions.Phys Rev Lett722298
- 79. Foty RA, Pfleger CM, Forgacs G, Steinberg MS (1996) Surface tensions of embryonic tissues predict their mutual envelopment behavior. Development 122: 1611.RA FotyCM PflegerG. ForgacsMS Steinberg1996Surface tensions of embryonic tissues predict their mutual envelopment behavior.Development1221611
- 80. Forgacs G, Foty RA, Shafrir Y, Steinberg MS (1998) Viscoelastic properties of living embryonic tissues: a quantitative study. Biophys J 74: 2227.G. ForgacsRA FotyY. ShafrirMS Steinberg1998Viscoelastic properties of living embryonic tissues: a quantitative study.Biophys J742227
- 81. Guiot C, Delsanto PP, Deisboeck TS (2007) Morphological instability and cancer invasion: a ‘splashing water drop’ analogy. Theor Biol Med Model 4: 4.C. GuiotPP DelsantoTS Deisboeck2007Morphological instability and cancer invasion: a ‘splashing water drop’ analogy.Theor Biol Med Model44
- 82. Mariani L, Beaudry C, McDonough WS, Hoelzinger DB, Demuth T, et al. (2001) Glioma cell motility is associated with reduced transcription of proapoptotic and proliferation genes: a cDNA microarray analysis. J Neuro-Oncol 53: 161.L. MarianiC. BeaudryWS McDonoughDB HoelzingerT. Demuth2001Glioma cell motility is associated with reduced transcription of proapoptotic and proliferation genes: a cDNA microarray analysis.J Neuro-Oncol53161
- 83. Forsythe JA, Jiang BH, Iyer NV, Agani F, Leung SW, et al. (1996) Activation of vascular endothelial growth factor gene transcription by hypoxia-inducible factor 1. Mol Cell Biol 16: 4604.JA ForsytheBH JiangNV IyerF. AganiSW Leung1996Activation of vascular endothelial growth factor gene transcription by hypoxia-inducible factor 1.Mol Cell Biol164604
- 84. Shweiki D, Itin A, Soffer D, Keshet E (1992) Vascular endothelial growth factor induced by hypoxia may mediate hypoxia-initiated angiogenesis. Nature 359: 843.D. ShweikiA. ItinD. SofferE. Keshet1992Vascular endothelial growth factor induced by hypoxia may mediate hypoxia-initiated angiogenesis.Nature359843
- 85. Folkman J (1995) Angiogenesis in cancer, vascular, rheumatoid and other disease. Nature Med 1: 21.J. Folkman1995Angiogenesis in cancer, vascular, rheumatoid and other disease.Nature Med121
- 86. Wadell H (1935) Volume, shape and roundness of quartz particles. J Geol 43: 250.H. Wadell1935Volume, shape and roundness of quartz particles.J Geol43250
- 87. Popławski NJ, Shirinifard A, Swat M, Glazier JA (2008) Simulation of single-species bacterial-biofilm growth using the Glazier-Graner-Hogeweg model and the CompuCell3D modeling environment. Math Biosci Eng 5: 355.NJ PopławskiA. ShirinifardM. SwatJA Glazier2008Simulation of single-species bacterial-biofilm growth using the Glazier-Graner-Hogeweg model and the CompuCell3D modeling environment.Math Biosci Eng5355
- 88. Moore MG, Juel A, Burgess JM, McCormick WD, Swinney HL (2002) Fluctuations in viscous fingering. Phys Rev E 65: 030601(R).MG MooreA. JuelJM BurgessWD McCormickHL Swinney2002Fluctuations in viscous fingering.Phys Rev E65030601(R)
- 89. Miura T, Shiota K (2002) Depletion of FGF acts as a lateral inhibitory factor in lung branching morphogenesis in vitro. Mech Dev 116: 29.T. MiuraK. Shiota2002Depletion of FGF acts as a lateral inhibitory factor in lung branching morphogenesis in vitro.Mech Dev11629
- 90. Hartmann D, Miura T (2006) Modelling in vitro lung branching morphogenesis during development. J Theor Biol 242: 862.D. HartmannT. Miura2006Modelling in vitro lung branching morphogenesis during development.J Theor Biol242862
- 91. Turner S, Sherratt JA, Painter KJ, Savill NJ (2004) From a discrete to a continuous model of biological cell movement. Phys Rev E 69: 021910.S. TurnerJA SherrattKJ PainterNJ Savill2004From a discrete to a continuous model of biological cell movement.Phys Rev E69021910
- 92. Wise SM, Lowengrub JS, Frieboes HB, Cristini V (2008) Three-dimensional multispecies nonlinear tumor growth - I: Model and numerical method. J Theor Biol 253: 524.SM WiseJS LowengrubHB FrieboesV. Cristini2008Three-dimensional multispecies nonlinear tumor growth - I: Model and numerical method.J Theor Biol253524
- 93. Bello L, Lucini V, Carrabba G, Giussani C, Machluf M, et al. (2001) Simultaneous inhibition of glioma angiogenesis, cell proliferation, and invasion by a naturally occurring fragment of human metalloproteinase-2. Cancer Res 61: 8730.L. BelloV. LuciniG. CarrabbaC. GiussaniM. Machluf2001Simultaneous inhibition of glioma angiogenesis, cell proliferation, and invasion by a naturally occurring fragment of human metalloproteinase-2.Cancer Res618730
- 94. Deisboeck TS (2008) Cancer: a profit-driven biosystem? Med Hypotheses 71: 186.TS Deisboeck2008Cancer: a profit-driven biosystem?Med Hypotheses71186
- 95. Stetler-Stevenson WG, Hewitt R, Corcoran M (1996) Matrix metallo-proteinases and tumour invasion: from correlation to causality to the clinic. Cancer Biol 7: 147.WG Stetler-StevensonR. HewittM. Corcoran1996Matrix metallo-proteinases and tumour invasion: from correlation to causality to the clinic.Cancer Biol7147
- 96. Chambers AF, Matrisian LM (1997) Changing views of the role of matrix metalloproteinases in metastasis. J Natl Cancer Inst 89: 1260.AF ChambersLM Matrisian1997Changing views of the role of matrix metalloproteinases in metastasis.J Natl Cancer Inst891260
- 97. Balter A, Merks RMH, Popławski NJ, Swat M, Glazier JA (2007) The Glazier-Graner-Hogeweg model: extensions, future directions, and opportunities for further study. In: Anderson ARA, Chaplain MAJ, Rejniak KA, editors. Single-Cell-Based Models in Biology and Medicine, Birkhäuser-Verlag. 151 p.A. BalterRMH MerksNJ PopławskiM. SwatJA Glazier2007The Glazier-Graner-Hogeweg model: extensions, future directions, and opportunities for further study.ARA AndersonMAJ ChaplainKA RejniakSingle-Cell-Based Models in Biology and Medicine, Birkhäuser-Verlag151
- 98. Holm EA, Glazier JA, Srolovitz DJ, Grest GS (1991) Effects of lattice anisotropy and temperature on domain growth in the two-dimensional Potts model. Phys Rev A 43: 2662.EA HolmJA GlazierDJ SrolovitzGS Grest1991Effects of lattice anisotropy and temperature on domain growth in the two-dimensional Potts model.Phys Rev A432662
- 99. Melicow MM (1982) The three-steps to cancer: a new concept of carcinogenesis. J Theor Biol 94: 471.MM Melicow1982The three-steps to cancer: a new concept of carcinogenesis.J Theor Biol94471
- 100. Folkman J, Hochberg M (1973) Self-regulation of growth in three dimensions. J Exp Med 138: 745.J. FolkmanM. Hochberg1973Self-regulation of growth in three dimensions.J Exp Med138745
- 101. Popławski NJ, Swat M, Gens JS, Glazier JA (2007) Adhesion between cells, diffusion of growth factors, and elasticity of the AER produce the paddle shape of the chick limb. Physica A 373: 521.NJ PopławskiM. SwatJS GensJA Glazier2007Adhesion between cells, diffusion of growth factors, and elasticity of the AER produce the paddle shape of the chick limb.Physica A373521