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The technique presented here identifies tethered mould designs, optimised for growing cultured tissue with very highly-aligned cells. It is based on a microscopic biophysical model for polarised cellular hydrogels. There is an unmet need…

Biological Physics · Physics 2023-06-26 James P. Hague , Allison E. Andrews , Hugh Dickinson

We present a machine learning approach for predicting the organisation of corneal, glial and fibroblast cells in 3D cultures used for tissue engineering. Our machine-learning-based method uses a powerful generative adversarial network…

Biological Physics · Physics 2025-02-13 Allison E. Andrews , Hugh Dickinson , Caitriona O'Rourke , James B. Philips , James P. Hague

During developmental processes such as embryogenesis, how a group of cells fold into specific structures, is a central question in biology that defines how living organisms form. Establishing tissue-level morphology critically relies on how…

Soft Condensed Matter · Physics 2024-07-23 Haiqian Yang , Anh Q. Nguyen , Dapeng Bi , Markus J. Buehler , Ming Guo

The positioning of new cellular walls during cell division plays a key role in shaping plant tissue organization. The influence of cell geometry on the positioning of division planes has been previously captured into various geometrical…

Machine Learning · Computer Science 2025-07-31 Alexandre Durrmeyer , Jean-Christophe Palauqui , Philippe Andrey

Cell lineage decisions occur in three-dimensional spatial patterns that are difficult to identify by eye. There is an ongoing effort to replicate such patterns using mathematical modeling. One approach uses long ranging cell-cell…

Cell Behavior · Quantitative Biology 2022-12-21 Robin Dirk , Jonas L. Fischer , Simon Schardt , Markus J. Ankenbrand , Sabine C. Fischer

The response of adult human bone marrow stromal stem cells to surface topographies generated through femtosecond laser machining can be predicted by a deep neural network. The network is capable of predicting cell response to a…

Image and Video Processing · Electrical Eng. & Systems 2020-09-25 Benita S. Mackay , Matthew Praeger , James A. Grant-Jacob , Janos Kanczler , Robert W. Eason , Richard O. C. Oreffo , Ben Mills

The organization of cells within tissues plays a vital role in various biological processes, including development and morphogenesis. As a result, understanding how cells self-organize in tissues has been an active area of research. In our…

Soft Condensed Matter · Physics 2023-10-09 Kanaya Malakar , Rafael I. Rubenstein , Dapeng Bi , Bulbul Chakraborty

There is an unmet need for artificial intelligence techniques that can speed up the design of growth strategies for cultured tissues. Cultured tissue is increasingly important for a range of applications such as cultivated meat,…

Biological Physics · Physics 2025-08-04 Allison E. Andrews , Hugh Dickinson , James P. Hague

Tissue engineering aims to grow artificial tissues \emph{in vitro} to replace those in the body that have been damaged through age, trauma or disease. A recent approach to engineer artificial cartilage involves seeding cells within a…

Soft Condensed Matter · Physics 2017-12-05 M. J. Chen , L. S. Kimpton , J. P. Whiteley , M. Castilho , J. Malda , C. P. Please , S. L. Waters , H. M. Byrne

Deep learning has been used in many areas, such as feature detections in images and the game of go. This paper presents a study that attempts to use the deep learning method to predict turbomachinery performance. Three different deep neural…

Machine Learning · Computer Science 2018-06-20 Cheng'an Bai , Chao Zhou

Molecular self-assembly plays a very important role in various aspects of technology as well as in biological systems. Governed by the covalent, hydrogen or van der Waals interactions - self-assembly of alike molecules results in a large…

A machine learning approach is presented to accelerate the computation of block polymer morphology evolution for large domains over long timescales. The strategy exploits the separation of characteristic times between coarse-grained…

Chemical Physics · Physics 2023-09-01 Hyun Park , Boyuan Yu , Juhae Park , Ge Sun , Emad Tajkhorshid , Juan J. de Pablo , Ludwig Schneider

The world of 2D materials is rapidly expanding with new discoveries of stackable and twistable layered systems composed of lattices of different symmetries, orbital character, and structural motifs. Often, however, it is not clear a priori…

Mesoscale and Nanoscale Physics · Physics 2025-12-19 Daniel Kaplan , Alexander C. Tyner , Eva Y. Andrei , J. H. Pixley

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…

Machine Learning · Computer Science 2023-02-02 Deniz Oktay , Mehran Mirramezani , Eder Medina , Ryan P. Adams

Deep learning, through the use of neural networks, has demonstrated remarkable ability to automate many routine tasks when presented with sufficient data for training. The neural network architecture (e.g. number of layers, types of layers,…

Machine learning is a modern approach to problem-solving and task automation. In particular, machine learning is concerned with the development and applications of algorithms that can recognize patterns in data and use them for predictive…

Understanding the rules underlying organismal development is a major unsolved problem in biology. Each cell in a developing organism responds to signals in its local environment by dividing, excreting, consuming, or reorganizing, yet how…

Cell Behavior · Quantitative Biology 2025-08-20 Ramya Deshpande , Francesco Mottes , Ariana-Dalia Vlad , Michael P. Brenner , Alma dal Co

Contact-assisted protein folding has made very good progress, but two challenges remain. One is accurate contact prediction for proteins lack of many sequence homologs and the other is that time-consuming folding simulation is often needed…

Biomolecules · Quantitative Biology 2022-10-12 Jinbo Xu

Accurate and efficient prediction of polymer properties is of key importance for polymer design. Traditional experimental tools and density function theory (DFT)-based simulations for polymer property evaluation, are both expensive and…

Materials Science · Physics 2024-10-08 Cong Shen , Yipeng Zhang , Fei Han , Kelin Xia

From the nano-scale to the macro-scale, biological tissue is spatially heterogeneous. Even when tissue behavior is well understood, the exact subject specific spatial distribution of material properties is often unknown. And, when…

Tissues and Organs · Quantitative Biology 2020-11-02 Emma Lejeune , Bill Zhao
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