Publications associées à Niveau d'organisation (biologie)

Structure and dynamics of liquid water from ab initio simulations: adding Minnesota density functionals to Jacob's ladder

Ursula Röthlisberger, Justin Villard, Martin Peter Bircher

The accurate representation of the structural and dynamical properties of water is essential for simulating the unique behavior of this ubiquitous solvent. Here we assess the current status of describing liquid water using ab initio molecular dynamics, wit ...

Royal Soc Chemistry2024

Advancing first principle-based molecular dynamics of biological systems with machine learning

François Louis Mouvet

Molecular dynamics (MD) simulations have emerged as a transformative approach to analyse molecular systems at the atomic level, offering valuable insights into complex biological processes. Many biological phenomena can only accurately be described by inco ...

EPFL2023

Industrial Biotechnology Conservation Processes: Similarities with Natural Long-Term Preservation of Biological Organisms

Philippe Abdel Sayed, Corinne Scaletta, Lee Ann Laurent-Applegate, Nathalie Hirt-Burri, Laurent Alexis Clément Vannay, Alexis Laurent

Cryopreservation and lyophilization processes are widely used for conservation purposes in the pharmaceutical, biotechnological, and food industries or in medical transplantation. Such processes deal with extremely low temperatures (e.g., -196 degrees C) a ...

MDPI2023

Label-free plasmonic microarray for multiplexed analysis of cells and tumor organoids

Yen-Cheng Liu

Investigating the dynamic activities of protein expression and signaling in living organisms is a crucial focus of intense research aimed at elucidating the processes that underlie disease progression and improving treatments and drug development. Resolvin ...

EPFL2023

Company Town : To Provide and to Separate. An Open Letter to Giorgio Agamben [by] Vittorio Gregotti

Anna Karla De Almeida Milani

This letter, written by the architect Vittorio Gregotti to the philosopher Giorgio Agamben, was originally published in 1997 in the Italian Journal Rassegna, which Gregotti directed from 1979 to 1998. It is perhaps the very first time that a practicing arc ...

2023

Robotic manipulation to investigate the physical principles of biological self-organization

Fazil Emre Uslu

Self-organization is the spontaneous formation of ordered patterns and networks from a population of comparatively simple elements or individuals with no prior information on neither the formation process nor the final organization. While the construction ...

EPFL2022

Symbolic kinetic models in python (SKiMpy): intuitive modeling of large-scale biological kinetic models

Vassily Hatzimanikatis, Georgios Fengos, Maria Masid Barcon, Daniel Robert Weilandt, Zhaleh Hosseini, Pierre Guy Rémy Salvy

Motivation: Large-scale kinetic models are an invaluable tool to understand the dynamic and adaptive responses of biological systems. The development and application of these models have been limited by the availability of computational tools to build and ...

OXFORD UNIV PRESS2022

Hierarchical tensile structures with ultralow mechanical dissipation

Tobias Kippenberg, Sergey Fedorov, Alberto Beccari, Amirali Arabmoheghi, Nils Johan Engelsen

Structural hierarchy is found in myriad biological systems and has improved man-made structures ranging from the Eiffel tower to optical cavities. In mechanical resonators whose rigidity is provided by static tension, structural hierarchy can reduce the di ...

Nature Portfolio2022

Principles of checkpoint override

Ahmad Sadeghi

Why biological quality-control systems fail is often mysterious. Specifically, checkpoints such as the DNA damage checkpoint or the spindle assembly checkpoint are overriden after prolonged arrests allowing cells to continue dividing despite the continued ...

EPFL2022

The Height of Chitinous Ridges Alone Produces the Entire Structural Color Palette

Hemant Kumar Raut

The colorful wings of butterflies result from the interaction between light and the intricate chitinous nanostructures on butterflies’ scales. This study demonstrates that just by reproducing the chitinous ridges present in butterfly scales (i.e., without ...

2022

Resolution and penetration depth of reflection-mode time-domain near infrared optical tomography using a ToF SPAD camera

Edoardo Charbon, Martin Wolf, Jingjing Jiang

In a turbid medium such as biological tissue, near-infrared optical tomography (NIROT) can image the oxygenation, a highly relevant clinical parameter. To be an efficient diagnostic tool, NIROT has to have high spatial resolution and depth sensitivity, fas ...

Optica Publishing Group2022

Combining multi-stage ion mobility spectrometry with cryogenic infrared spectroscopy for glycan analysis

Priyanka Bansal

Structural analysis of biomolecules is essential to understanding biological processes. Among the various classes of biomolecules, glycans have gained significant attention recently due to their ubiquitous roles in biological systems. However, study of gly ...

EPFL2022

Western listeners detect boundary hierarchy in Indian music: a segmentation study

Martin Alois Rohrmeier, Tudor Popescu

How are listeners able to follow and enjoy complex pieces of music? Several theoretical frameworks suggest links between the process of listening and the formal structure of music, involving a division of the musical surface into structural units at multip ...

NATURE RESEARCH2021

Wireless soft microscale actuators and robotic devices to study mechanobiology

Raquel Filipa Penacho Parreira

Tissues morphogenesis and homeostasis involve the spatiotemporal regulation of mechanics at multiple scales. Characterization of mechanical properties of biological systems as well as investigating the effects of mechanical forces on biological function ar ...

EPFL2021

The effects of model complexity and size on metabolic flux distribution and control: case study in Escherichia coli

Vassily Hatzimanikatis, Georgios Fengos, Tuure Eelis Hameri

Background Significant efforts have been made in building large-scale kinetic models of cellular metabolism in the past two decades. However, most kinetic models published to date, remain focused around central carbon pathways or are built around ad hoc re ...

BMC2021

Magneto-active elastic shells with tunable buckling strength

Pedro Miguel Nunes Pereira de Almeida Reis, Matteo Pezzulla, Dong Yan, Arefeh Abbasi

Shell buckling is central in many biological structures and advanced functional materials, even if, traditionally, this elastic instability has been regarded as a catastrophic phenomenon to be avoided for engineering structures. Either way, predicting crit ...

Nature Research2021

The phase separation-dependent FUS interactome reveals nuclear and cytoplasmic function of liquid-liquid phase separation

Helen Lindsay

Liquid-liquid phase separation (LLPS) of proteins and RNAs has emerged as the driving force underlying the formation of membrane-less organelles. Such biomolecular condensates have various biological functions and have been linked to disease. The protein F ...

2021

On the exploration of novel methodological approaches for immunogen design: case studies in influenza and hepatitis C

Andreas Scheck

Proteins are fundamental components in biological systems and crucial for a variety of biological functions. Over the last decades, significant progress in structural biology has facilitated the study of proteins and their interactions with molecular partn ...

EPFL2021

Fiber-Tip Polymer Microcantilever for Fast and Highly Sensitive Hydrogen Measurement

Giovanni Dietler, Sandor Kasas, Jiangtao Zhou, Leonardo Venturelli, Yiping Wang, Chaohui Li, Meng Zhu, Cong Xiong

Hydrogen as an antioxidant gas has been widely used in the medical and biological fields for preventing cancer or treating inflammation. However, controlling the hydrogen concentration is crucial for practical use due to its explosive property when its vol ...

AMER CHEMICAL SOC2020

The emergence and promise of single-cell temporal-omics approaches

Gioele La Manno, Alex Russell Lederer

Single-cell transcriptomics enables the measurement of gene expression in complex biological systems at the resolution of individual cells. Multivariate analysis of single-cell data helps describe the variation in expression accompanying cellular processes ...

CURRENT BIOLOGY LTD2020