Computational study of biomechanical drivers of renal cystogenesis

Biomechanical Modelling of Porcine Kidney

In this study, the viscoelastic properties of porcine kidney in the upper, middle and lower poles were investigated using oscillatory shear tests. The viscoelastic properties were extracted in the form of the storage modulus and loss modulus in the frequency and time domain. Measurements were taken as a function of frequency from 0.1 Hz to 6.5 Hz at a shear strain amplitude of 0.01 and as function of strain amplitude from 0.001 to 0.1 at a frequency of 1 Hz. Measurements were also taken in the time domain in response to a step shear strain. Both the frequency and time domain data were fitted to a conventional Standard Linear Solid (SLS) model and a semi-fractional Kelvin-Voigt (SFKV) model with a comparable number of parameters. The SFKV model fitted the frequency and time domain data with a correlation coefficient of 0.99. Although the SLS model well fitted the time domain data and the storage modulus data in the frequency domain, it was not able to capture the variation in loss modulus with frequency with a correlation coefficient of 0.53. A five parameter Maxwell-Wiechert model was able to capture the frequency dependence in storage modulus and loss modulus better than the SLS model with a correlation of 0.85.

Segmenting mechanically heterogeneous domains via unsupervised learning

From biological organs to soft robotics, highly deformable materials are essential components of natural and engineered systems. These highly deformable materials can have heterogeneous material properties, and can experience heterogeneous deformations with or without underlying material heterogeneity. Many recent works have established that computational modeling approaches are well suited for understanding and predicting the consequences of material heterogeneity and for interpreting observed heterogeneous strain fields. In particular, there has been significant work toward developing inverse analysis approaches that can convert observed kinematic quantities (e.g., displacement, strain) to material properties and mechanical state. Despite the success of these approaches, they are not necessarily generalizable and often rely on tight control and knowledge of boundary conditions. Here, we will build on the recent advances (and ubiquity) of machine learning approaches to explore alternative approaches to detect patterns in heterogeneous material properties and mechanical behavior. Specifically, we will explore unsupervised learning approaches to clustering and ensemble clustering to identify heterogeneous regions. Overall, we find that these approaches are effective, yet limited in their abilities. Through this initial exploration (where all data and code are published alongside this manuscript), we set the stage for future studies that more specifically adapt these methods to mechanical data.