Publications by Fabrizio Benedetti

Unsupervised Analysis of Flow Cytometry Data in a Clinical Setting Captures Cell Diversity and Allows Population Discovery

Nicolas Jean Philippe Guex, George Coukos, Fabrizio Benedetti, Ioannis Xenarios, Alexandre Harari

2021

Identification and nanomechanical characterization of the fundamental single-strand protofilaments of amyloid α-synuclein fibrils

Giovanni Dietler, Francesco Simone Ruggeri, Hilal Lashuel, Fabrizio Benedetti

National Academy of Sciences2018

Transcription-induced supercoiling explains formation of self-interacting chromatin domains in S-pombe

Yannis Burnier, Julien Dorier, Fabrizio Benedetti, Andrzej Stasiak

The question of how self-interacting chromatin domains in interphase chromosomes are structured and generated dominates current discussions on eukaryotic chromosomes. Numerical simulations using standard polymer models have been helpful in testing the vali ...

Oxford University Press (OUP)2017

Hyperplectonemes: A Higher Order Compact and Dynamic DNA Self-Organization

Giovanni Dietler, Paolo De Los Rios, Giovanni Longo, Fabrizio Benedetti, Aleksandre Japaridze

Bacterial chromosome has a compact structure that dynamically changes its shape in response to bacterial growth rate and growth phase. Determining how chromatin remains accessible to DNA binding proteins, and transcription machinery is crucial to understan ...

American Chemical Society2017

Can Dissipative Properties of Single Molecules Be Extracted from a Force Spectroscopy Experiment?

Giovanni Dietler, Andrzej Kulik, Serguei Sekatski, Dmitry Klinov, Fabrizio Benedetti

We performed dynamic force spectroscopy of single dextran and titin 127 molecules using small-amplitude and low-frequency (40-240 Hz) dithering of an atomic force microscope tip excited by a sine wave voltage fed onto the tip-carrying piezo. We show that f ...

Elsevier2016

Effects of physiological self-crowding of DNA on shape and biological properties of DNA molecules with various levels of supercoiling

Giovanni Dietler, Julien Dorier, Fabrizio Benedetti, Yannis Burnier, Aleksandre Japaridze, Andrzej Stasiak, Robert Sebastian Kwapich

DNA in bacterial chromosomes and bacterial plasmids is supercoiled. DNA supercoiling is essential for DNA replication and gene regulation. However, the density of supercoiling in vivo is circa twice smaller than in deproteinized DNA molecules isolated from ...

Oxford University Press2015

Models that include supercoiling of topological domains reproduce several known features of interphase chromosomes

Yannis Burnier, Julien Dorier, Fabrizio Benedetti, Andrzej Stasiak

Understanding the structure of interphase chromosomes is essential to elucidate regulatory mechanisms of gene expression. During recent years, high-throughput DNA sequencing expanded the power of chromosome conformation capture (3C) methods that provide in ...

Oxford University Press2014

Force-induced globule-coil transition in laminin binding protein and its role for viral-cell membrane fusion

Giovanni Dietler, Serguei Sekatski, Fabrizio Benedetti, Andrey Mikhaylov, Tatyana Karakouz, Denis Korneev

The specific interactions of the pairs laminin binding protein (LBP)-purified tick-borne encephalitis viral surface protein E and certain recombinant fragments of this protein, as well as West Nile viral surface protein E and certain recombinant fragments ...

Wiley-Blackwell2014

Real-Time Monitoring of Protein Conformational Changes Using a Nano-Mechanical Sensor

Giovanni Dietler, Paolo De Los Rios, Sandor Kasas, Giovanni Longo, Dusan Vobornik, Fabrizio Benedetti, Livan Bladimir Alonso Sarduy

Proteins can switch between different conformations in response to stimuli, such as pH or temperature variations, or to the binding of ligands. Such plasticity and its kinetics can have a crucial functional role, and their characterization has taken center ...

Public Library of Science2014

Dependence of the most probable and average bond rupture force on the force loading rate: First order correction to the Bell-Evans model

Giovanni Dietler, Serguei Sekatski, Fabrizio Benedetti

The Bell-Evans model which predicts the linear dependence of the most probable intermolecular bond rupture force on the logarithm of stretching force loading rate is usually used to discuss the dynamic force spectroscopy experiment data. This model is cons ...

American Institute of Physics2013