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We study phase behaviours of lipid--bilayer vesicles functionalised by ligand--receptor complexes made of synthetic DNA by introducing a modelling framework and a dedicated experimental platform. In particular, we perform Monte Carlo…

Soft Condensed Matter · Physics 2016-08-23 S. J. Bachmann , J. Kotar , L. Parolini , A. Šarić , P. Cicuta , L. Di Michele , B. M. Mognetti

Protein activation and deactivation is central to a variety of biological mechanisms, including cellular signaling and transport. Unimolecular fluorescent resonance energy transfer (FRET) probes are a class of fusion protein sensors that…

Biomolecules · Quantitative Biology 2018-11-30 Shourjya Sanyal , David F. Coker , Donal MacKernan

Depth cues with affluent spatial information have been proven beneficial in boosting salient object detection (SOD), while the depth quality directly affects the subsequent SOD performance. However, it is inevitable to obtain some…

Computer Vision and Pattern Recognition · Computer Science 2021-04-21 Zhou Huang , Huai-Xin Chen , Tao Zhou , Yun-Zhi Yang , Bi-Yuan Liu

Understanding the molecular determinants of specificity in protein-protein interaction is an outstanding challenge of postgenome biology. The availability of large protein databases generated from sequences of hundreds of bacterial genomes…

Biomolecules · Quantitative Biology 2009-01-12 M. Weigt , R. A. White , H. Szurmant , J. A. Hoch , T. Hwa

We study the effective interaction mediated by strongly coupled Coulomb fluids between dielectric surfaces carrying quenched, random monopolar charges with equal mean and variance, both when the Coulomb fluid consists only of mobile…

Soft Condensed Matter · Physics 2020-10-01 Malihe Ghodrat , Ali Naji , Haniyeh Komaie-Moghaddam , Rudolf Podgornik

In recent years machine learning (ML) took bio- and cheminformatics fields by storm, providing new solutions for a vast repertoire of problems related to protein sequence, structure, and interactions analysis. ML techniques, deep neural…

Biomolecules · Quantitative Biology 2020-03-31 Marta M. Stepniewska-Dziubinska , Piotr Zielenkiewicz , Pawel Siedlecki

Salient object detection requires a comprehensive and scalable receptive field to locate the visually significant objects in the image. Recently, the emergence of visual transformers and multi-branch modules has significantly enhanced the…

Computer Vision and Pattern Recognition · Computer Science 2021-10-18 Mingcan Ma , Changqun Xia , Chenxi Xie , Xiaowu Chen , Jia Li

Protein contacts provide key information for the understanding of protein structure and function, and therefore contact prediction from sequences is an important problem. Recent research shows that some correctly predicted long-range…

Quantitative Methods · Quantitative Biology 2020-09-02 Siqi Sun

In computer-aided diagnosis tools employed for skin cancer treatment and early diagnosis, skin lesion segmentation is important. However, achieving precise segmentation is challenging due to inherent variations in appearance, contrast,…

Computer Vision and Pattern Recognition · Computer Science 2024-09-10 Asim Naveed , Syed S. Naqvi , Tariq M. Khan , Shahzaib Iqbal , M. Yaqoob Wani , Haroon Ahmed Khan

Understanding the structural properties of random packings of jammed colloids requires an unprecedented high-resolution determination of the contact network providing mechanical stability to the packing. Here, we address the determination…

Soft Condensed Matter · Physics 2017-08-17 Eru Kyeyune-Nyombi , Flaviano Morone , Wenwei Liu , Shuiqing Li , M. Lane Gilchrist , Hernan A. Makse

Direct imaging of single molecules at nanostructured interfaces is a grand challenge, with potential to enable new, precise material architectures and technologies. Of particular interest are the structural morphology and spectroscopic…

Intracellular signaling often arises from ligand-induced oligomerization of cell surface receptors. This oligomerization or clustering process is fundamentally a cooperative behavior between near-neighbor receptor molecules; the properties…

Soft Condensed Matter · Physics 2009-10-31 Chinlin Guo , Herbert Levine

The mechanosensory system of teeth is currently believed to partly rely on Odontoblast cells stimulation by fluid flow through a porosity network extending through dentin. Visualizing the smallest sub-microscopic porosity vessels therefore…

Machine Learning · Computer Science 2025-10-10 Lauren Anderson , Lucas Chatelain , Nicolas Tremblay , Kathryn Grandfield , David Rousseau , Aurélien Gourrier

We present a detailed numerical study of multi-component colloidal gels interacting sterically and obtained by arrested phase separation. Under deformation, we found that the interplay between the different intertwined networks is key.…

Soft Condensed Matter · Physics 2020-06-11 Claudia Ferreiro-Cordova , Mehdi Bouzid , Emanuela Del Gado , Giuseppe Foffi

Surface-enhanced spectroscopy techniques are the method-of-choice to characterize adsorbed intermediates occurring during electrochemical reactions, which are crucial in realizing a green sustainable future. Characterizing species with low…

Mesoscale and Nanoscale Physics · Physics 2023-07-21 Malo Duportal , Luca M. Berger , Stefan A. Maier , Andreas Tittl , Katharina Krischer

The design of hybrid peptide-solid interfaces for nanotechnological applications such as biomolecular nanoarrays requires a deep understanding of the basic mechanisms of peptide binding and assembly at solid substrates. Here we show by…

Mesoscale and Nanoscale Physics · Physics 2011-07-07 Michael Bachmann , Karsten Goede , Annette G. Beck-Sickinger , Marius Grundmann , Anders Irbäck , Wolfhard Janke

Cell membranes interact via anchored receptor and ligand molecules. Central questions on cell adhesion concern the binding affinity of these membrane-anchored molecules, the mechanisms leading to the receptor-ligand domains observed during…

Soft Condensed Matter · Physics 2009-06-10 Thomas R. Weikl , Mesfin Asfaw , Heinrich Krobath , Bartosz Rozycki , Reinhard Lipowsky

The paraphrasis of Feynman's statement is used to highlight the inherent relevance of surfaces -- and interfaces -- at the nanoscale. Here, the marked impact of the surface chemistry on the light absorption by colloidal inorganic…

Materials Science · Physics 2018-12-18 Carlo Giansante

Effective fusion of different types of features is the key to salient object detection. The majority of existing network structure design is based on the subjective experience of scholars and the process of feature fusion does not consider…

Computer Vision and Pattern Recognition · Computer Science 2022-02-14 Jinchao Zhu , Xiaoyu Zhang , Xian Fang , Feng Dong , Li Yuehua , Junnan Liu

In this work, we propose to utilize Convolutional Neural Networks to boost the performance of depth-induced salient object detection by capturing the high-level representative features for depth modality. We formulate the depth-induced…

Computer Vision and Pattern Recognition · Computer Science 2017-06-01 Hao Chen , Y. F. Li , Dan Su
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