24 papers · ranked by Valyu relevance
Wallace F Marshall
Cells are highly complex and orderly machines, with defined shapes and a startling variety of internal organizations. Complex geometry is a feature of both free-living unicellular organisms and cells inside multicellular animals. Where does the geometry of a cell come from? Many of the same questions that arise in…
Ruth Nussinov
The spatial structure of the cell is highly organized at all levels: from small complexes and assemblies, to local nano- and micro-clusters, to global, micrometer scales across and between cells. We suggest that this multiscale spatial cell organization also organizes signaling and coordinates cellular behavior. We…
Matheus P. Viana, Jianxu Chen, Theo A. Knijnenburg, Ritvik Vasan + 76 more
Despite the intimate link between cell organization and function, the principles underlying intracellular organization and the relation between organization, gene expression and phenotype are not well understood. We address this by creating a benchmark for mean cell organization and the natural range of cell-to-cell…
Rory M. Donovan-Maiye, Jackson M. Brown, Caleb K. Chan, Liya Ding + 7 more
'Calysta Yan' 'Nathalie Gaudreault' 'Julie A. Theriot' 'Mary M. Maleckar' 'Theo A. Knijnenburg' 'Gregory R. Johnson' 'Jeffrey J. Saucerman'] We introduce a framework for end-to-end integrative modeling of 3D single-cell multi-channel fluorescent image data of diverse subcellular structures. We employ stacked…
Rory M. Donovan-Maiye, Jackson M. Brown, Caleb K. Chan, Liya Ding + 6 more
We introduce a framework for end-to-end integrative modeling of 3D single-cell multi-channel fluorescent image data of diverse subcellular structures. We employ stacked conditional β-variational autoencoders to first learn a latent representation of cell morphology, and then learn a latent representation of subcellular…
Kevin Jerbic, Jan Taro Svejda, Benedikt Sievert, Andreas Rennings + 2 more
'Jürg Fröhlich' 'Daniel Erni'] Numerical investigation of the interaction of electromagnetic fields with eukaryotic cells requires specifically adapted computer models. Virtual microdosimetry, used to investigate exposure, requires volumetric cell models, which are numerically challenging. For this reason, a method is…
Ernst Brücke, Daniel Liu
In 1861 the physiologist Ernst Brücke (1819-1892) published “The Elementary Organisms,” calling for a major reform of the definition of the animal cell. An English translation of Brücke’s essay is presented here for the first time. In this translation the numbered footnotes 1-9 are Brücke’s own; alphabetical endnotes…
Vishal S. Sivasankar, Roseanna N. Zia
The search for what differentiates inanimate matter from living things began in antiquity as a search for a "fundamental life force" embedded deep within living things — a special material unit owned only by life — later transforming to more circumspect search for unique gains in function that transform nonliving…
Eran Agmon
> Abstract: Composition is a powerful principle for systems biology, focused on the interfaces, interconnections, and orchestration of distributed processes. Whereas most systems biology models focus on the structure or dynamics of specific subsystems in controlled conditions, compositional systems biology aims to…
Qi Zhong, Chen-Xu Wu, Rui Ma
Walled cells, such as plants and fungi, compose an important part of the model systems in biology. The cell wall primarily functions to prevent the cell from over-expansion when exposed to water, and is a porous material distributed with nanosized pores on it. In this paper, we study the deformation of a membrane patch…
Sètuhn Jimaja, Andrea Belluati, Robert J. Chadwick, Christopher Glynn + 5 more
Artificial cells are biomimetic microstructures that mimic functions of natural cells and find application, e.g., as microreactors, as building blocks for molecular systems engineering, and to host synthetic biology pathways. Here, we report enzymatically synthesised polymer-based artificial cells with the ability to…
Raphael Mostov, Greyson Lewis, Gabriel Sturm, Wallace F. Marshall
This paper addresses the increasing need for comprehensive mathematical descriptions of cell organization by examining the algebraic structure of mitochondrial network dynamics. Mitochondria are cellular structures involved in metabolism that take the form of a network of membrane-based tubes that undergo continuous…
Satoshi Tsutsui, Winnie Pang, Shuting He, Bihan Wen
The microscopic examination of white blood cells (WBCs) plays a fundamental role in pathology and is essential for diagnosing blood disorders such as leukemia and anemia. To support further research on WBC images, multiple datasets have been proposed. However, they mainly annotate cell categories, and lack detailed…
Fazlur Rashid, Ning Wang
Over the last few decades, physical principles have been proposed to explain some biological processes and functions. However, biological principles remain elusive. A biological principle is a governing rule that guides the structure and functions of cells. Biological principles are built upon the laws of physics and…
Alexander Muacevic, John R Adler, Bruno Bordoni, Allan R Escher + 2 more
'Fabio Castellini' 'Joanna Vale'] The Foundation of Osteopathic Research and Clinical Endorsement (FORCE) is an organization that includes various figures involved in clinical and non-profit research and does not depend on any private or government body. To better understand how the human body behaves, we need to…
Kai Xu
The theory of evolution by natural selection cannot be used to evaluate the truth value of the following proposition: Through evolution, there exists at least one species that can adapt to any one given environment. To address this issue, this study attempted to define natural selection from the perspective of…
Selene M.C. Cannelli, Ritvik Gupta, Tan Nguyen, Arunava Poddar + 3 more
Liquid-liquid phase separation (LLPS) is a process that often occurs due to binding between oppositely charged biopolymers, and has gained increasing attention recently due to their ubiquity in biological systems and ability to direct essential cellular processes. For example, aberrant biological LLPS can lead to the…
Evgeny Sagulenko, Amanda Nouwens, Richard I. Webb, Kathryn Green + 11 more
Planctomycetes are distinguished from other Bacteria by compartmentalization of cells via internal membranes, interpretation of which has been subject to recent debate regarding potential relations to Gram-negative cell structure. In our interpretation of the available data, the planctomycete Gemmata obscuriglobus…
Lili Wang, Weiyi Chen
Cell origami has been widely used in the field of three-dimensional (3D) cell-populated microstructures due to their multiple advantages, including high biocompatibility, the lack of special requirements for substrate materials, and the lack of damage to cells. A 3D finite element method (FEM) model of an adherent cell…
Mary Mirvis, Brooke Weingard, Steven Goodman, Wallace F. Marshall
The level of cellular organization bridging the mesoscale and whole-cell scale is coming into focus as a new frontier in cell biology. Great progress has been made in unraveling the complex physical and functional interconnectivity of organelles, but how the entire organelle network spatially arranges within the…
Lev Salnikov
This paper proposes an original theory of aging of multicellular organisms. The cells of multicellular organisms, in contrast to unicellular organisms, are burdened with a two- part genome: housekeeping and specialized (multicellular), responsible for ontogenesis and terminal differentiation. The two parts of the…
Authors not listed
Self-organizing tissues, such as organoids, offer transformative potential beyond healthcare by enabling the sustainable production of advanced materials. Resource scarcity and global warming drive the need for innovative fabrication solutions. This prospective review explores developmental biology as a manufacturing…
Eduardo P. Olimpio, Diego R. Gomez‐Alvarez, Hyun Youk
Living systems, particularly multicellular systems, often seem hopelessly complex. But recent studies have suggested that beneath this complexity, there may be unifying quantitative principles that we are only now starting to unravel. All cells interact with their environments and with other cells. Communication among…
Authors not listed
The United Nations have committed to end the epidemics of communicable diseases by 2030 (SDG Target 3.3). In contrast with this ambition, the rise of Multi Drug Resistant (MDR) and Pan Drug Resistant (PDR) bacteria poses a threat of a return to the pre-antibiotic era. It is of high priority to find new therapies that…