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A sequence-dependent coarse-grain model of B-DNA with explicit description of bases and phosphate groups parametrised from large scale Molecular Dynamics simulations

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cgNA+: A sequence-dependent coarse-grain model of double-stranded nucleic acids

Rahul Sharma

DNA mechanics plays a crucial role in many biological processes, including nucleosome positioning and protein-DNA interactions. It is believed that nature employs epigenetic modifications in DNA to further regulate gene expression. Moreover, double-strande ...

EPFL2023

A KL Divergence-Based Loss for In Vivo Ultrafast Ultrasound Image Enhancement with Deep Learning

Jean-Philippe Thiran

Ultrafast ultrasound imaging, characterized by high frame rates, generates low-quality images. Convolutional neural networks (CNNs) have demonstrated great potential to enhance image quality without compromising the frame rate. However, CNNs have been most ...

2023

cgNA plus web : A Visual Interface to the cgNA plus Sequence-dependent Statistical Mechanics Model of Double-stranded Nucleic Acids

John Maddocks, Rahul Sharma, Alessandro Samuele Patelli

The sequence-dependent statistical mechanics of double-stranded nucleic acid, or dsNA, is believed to be essential in its biological functions. In turn, the equilibrium statistical mechanics behaviour of dsNA depends strongly both on sequence-dependent per ...

2023

A generic diffusion-based approach for 3D human pose prediction in the wild

Alexandre Massoud Alahi, Saeed Saadatnejad, Taylor Ferdinand Mordan

Predicting 3D human poses in real-world scenarios, also known as human pose forecasting, is inevitably subject to noisy inputs arising from inaccurate 3D pose estimations and occlusions. To address these challenges, we propose a diffusion-based approach th ...

IEEE2023

, ,

We consider the problem of parameter estimation in a Bayesian setting and propose a general lower-bound that includes part of the family of f-Divergences. The results are then applied to specific settings of interest and compared to other notable results i ...

2022

From Generalisation Error to Transportation-cost Inequalities and Back

Michael Christoph Gastpar, Amedeo Roberto Esposito

In this work, we connect the problem of bounding the expected generalisation error with transportation-cost inequalities. Exposing the underlying pattern behind both approaches we are able to generalise them and go beyond Kullback- Leibler Divergences/Mutu ...

2022

, ,

In this work, the probability of an event under some joint distribution is bounded by measuring it with the product of the marginals instead (which is typically easier to analyze) together with a measure of the dependence between the two random variables. ...

2021

Robust Generalization via $\alpha$-Mutual Information

Michael Christoph Gastpar, Amedeo Roberto Esposito, Ibrahim Issa

The aim of this work is to provide bounds connecting two probability measures of the same event using Rényi

\alpha

-Divergences and Sibson’s

\alpha

-Mutual Information, a generalization of respectively the Kullback-Leibler Divergence and Shannon’s Mutual ...

ETHZ2020

Robust Generalization via f−Mutual Information

Michael Christoph Gastpar, Amedeo Roberto Esposito, Ibrahim Issa

Given two probability measures P and Q and an event E, we provide bounds on P(E) in terms of Q(E) and f-divergences. In particular, the bounds are instantiated when the measures considered are a joint distribution and the corresponding product of marginals ...

IEEE2020

The computational prediction of crystal structures has emerged as an useful alternative to expensive and often cumbersome experiments. We propose an approach to the prediction of crystal structures and polymorphism based on reproducing the crystallization ...

EPFL2019

Robust Generalization via $\alpha$-Mutual Information

Michael Christoph Gastpar, Amedeo Roberto Esposito, Ibrahim Issa

The aim of this work is to provide bounds connecting two probability measures of the same event using Rényi

\alpha

-Divergences and Sibson’s

\alpha

-Mutual Information, a generalization of respectively the Kullback-Leibler Divergence and Shannon’s Mutual ...

ETHZ2020