Related papers: Exploring Fungal Morphology Simulation and Dynamic…
Most models of biological pattern formation are simulated on continuous domains even though cells are discrete objects that provide internal boundaries to the diffusion of regulatory components. In our previous papers on simulating…
We present two main contributions which help us in leveraging the theory of graphons for modeling evolutionary processes. We show a generative model for digraphons using a finite basis of subgraphs, which is representative of biological…
Intelligent biological systems are characterized by their embodiment in a complex environment and the intimate interplay between their nervous systems and the nonlinear mechanical properties of their bodies. This coordination, in which the…
We propose a probabilistic shape completion method extended to the continuous geometry of large-scale 3D scenes. Real-world scans of 3D scenes suffer from a considerable amount of missing data cluttered with unsegmented objects. The problem…
Modeling the 3D structures of cells and tissues is crucial in biology. Sequential cross-sectional images from electron microscopy provide high-resolution intracellular structure information. The segmentation of complex cell structures…
We investigate the ability of a genetic algorithm to design cellular automata that perform computations. The computational strategies of the resulting cellular automata can be understood using a framework in which ``particles'' embedded in…
A Recurrent Neural Network (RNN) was used to perform video frame prediction of microbial growth for a population of two mutants of Pseudomonas aeruginosa. The RNN was trained on videos of 20 frames that were acquired using fluorescence…
Recent advances in diffusion-based generative models have shown incredible promise for zero shot image-to-image translation and editing. Most of these approaches work by combining or replacing network-specific features used in the…
Preterm birth disrupts the typical trajectory of cortical neurodevelopment, increasing the risk of cognitive and behavioral difficulties. However, outcomes vary widely, posing a significant challenge for early prediction. To address this,…
The Game of Life (GoL), one well known 2D cellular automaton, does not typically ensure interesting long-term phenotypic dynamics. Therefore, while being Turing complete, GoL cannot be said to be open-ended. In this work, we extend GoL with…
Face morphing is a problem in computer graphics with numerous artistic and forensic applications. It is challenging due to variations in pose, lighting, gender, and ethnicity. This task consists of a warping for feature alignment and a…
Advances in synthetic biology allow us to engineer bacterial collectives with pre-specified characteristics. However, the behavior of these collectives is difficult to understand, as cellular growth and division as well as extra-cellular…
Diagnosis of fungal infections can rely on microscopic examination, however, in many cases, it does not allow unambiguous identification of the species due to their visual similarity. Therefore, it is usually necessary to use additional…
A plant growth simulation can be characterized as a reconstructed visual representation of a plant or plant system. The phenotypic characteristics and plant structures are controlled by the scene environment and other contextual attributes.…
Stable diffusion models have ushered in a new era of advancements in image generation, currently reigning as the state-of-the-art approach, exhibiting unparalleled performance. The process of diffusion, accompanied by denoising through…
Accurately simulating real world object dynamics is essential for various applications such as robotics, engineering, graphics, and design. To better capture complex real dynamics such as contact and friction, learned simulators based on…
We present a conditional generative model to learn variation in cell and nuclear morphology and the location of subcellular structures from microscopy images. Our model generalizes to a wide range of subcellular localization and allows for…
Cells in a fungal hyphae are separated by internal walls (septa). The septa have tiny pores that allow cytoplasm flowing between cells. Cells can close their septa blocking the flow if they are injured, preventing fluid loss from the rest…
Probabilistic diffusion models have achieved state-of-the-art results for image synthesis, inpainting, and text-to-image tasks. However, they are still in the early stages of generating complex 3D shapes. This work proposes Diffusion-SDF, a…
Light interacting with plant leaves undergoes reflection, transmission, scattering, and absorption, which together determine leaf optical properties. Changes in leaf architecture disrupt internal light scattering dynamics and consequently…