Publications associées à An Evaluation Framework for Lossy Compression of Genome Sequencing Quality Values

Subjective performance evaluation of bitrate allocation strategies for MPEG and JPEG Pleno point cloud compression

Touradj Ebrahimi, Davi Nachtigall Lazzarotto, Michela Testolina

The recent rise in interest in point clouds as an imaging modality has motivated standardization groups such as JPEG and MPEG to launch activities aiming at developing compression standards for point clouds. Lossy compression usually introduces visual arti ...

Springer2024

Extensions of Peer Prediction Incentive Mechanisms

Adam Julian Richardson

As large, data-driven artificial intelligence models become ubiquitous, guaranteeing high data quality is imperative for constructing models. Crowdsourcing, community sensing, and data filtering have long been the standard approaches to guaranteeing or imp ...

EPFL2024

Comparison of Three Viral Nucleic Acid Preamplification Pipelines for Sewage Viral Metagenomics

Tamar Kohn, Xavier Fernandez Cassi

Viral metagenomics is a useful tool for detecting multiple human viruses in urban sewage. However, more refined protocols are required for its effective use in disease surveillance. In this study, we investigated the performance of three different preampli ...

2024

Multi-well plate lid for single-step pooling of 96 samples for high-throughput barcode-based sequencing

Bart Deplancke, Daniel Migliozzi, Hüseyin Baris Atakan, Mustafa Demir, Riccardo Dainese, Daniel Alpern, Dariia Gudkova, Gilles Weder

High-throughput transcriptomics is of increasing fundamental biological and clinical interest. The generation of molecular data from large collections of samples, such as biobanks and drug libraries, is boosting the development of new biomarkers and treatm ...

Springer2024

Electromagnetic Radiation of Implantable Antennas

Mingxiang Gao

In the development of implantable bioelectronics, the establishment of efficient wireless RF links between implants and external nodes is crucial, providing substantial contributions to the advancement of medical diagnosis, therapies, and basic science. Im ...

EPFL2024

Single-mitosis dissection of acute and chronic DNA mutagenesis and repair

Christina Ernst

How chronic mutational processes and punctuated bursts of DNA damage drive evolution of the cancer genome is poorly understood. Here, we demonstrate a strategy to disentangle and quantify distinct mechanisms underlying genome evolution in single cells, dur ...

Nature Portfolio2024

SPEEDING UP KRYLOV SUBSPACE METHODS FOR COMPUTING f(A)b VIA RANDOMIZATION

Daniel Kressner, Alice Cortinovis

This work is concerned with the computation of the action of a matrix function f(A), such as the matrix exponential or the matrix square root, on a vector b. For a general matrix A, this can be done by computing the compression of A onto a suitable Krylov ...

Siam Publications2024

Genome sequences of Vibrio cholerae strains isolated in the DRC between 2009 and 2012

Melanie Blokesch, Sandrine Stutzmann, Natalia Carolina Drebes Dorr, Alexandre Lemopoulos

Vibrio cholerae has caused seven cholera pandemics in the past two centuries. The seventh and ongoing pandemic has been particularly severe on the African continent. Here, we report long read-based genome sequences of six V. cholerae strains isolated in th ...

2024

Encoding quantum-chemical knowledge into machine-learning models of complex molecular properties

Ksenia Briling

Statistical (machine-learning, ML) models are more and more often used in computational chemistry as a substitute to more expensive ab initio and parametrizable methods. While the ML algorithms are capable of learning physical laws implicitly from data, ad ...

EPFL2024

NMR and MS reveal characteristic metabolome atlas and optimize esophageal squamous cell carcinoma early detection

Lijing Xin, Yan Lin, Wei Ye, Yubo Zhao

Metabolic changes precede malignant histology. However, it remains unclear whether detectable characteristic metabolome exists in esophageal squamous cell carcinoma (ESCC) tissues and biofluids for early diagnosis. Here, we conduct NMR- and MS-based metabo ...

Nature Portfolio2024

A state-of-the-art, systematic review of indoor environmental quality studies in work-from-home settings

Giorgia Chinazzo

The COVID-19 pandemic has led to a significant increase in working from home worldwide, making the workfrom-home (WFH) setting a crucial context for studying the influence of indoor environmental quality (IEQ) on workers' well-being and productivity. A nar ...

Pergamon-Elsevier Science Ltd2024

Data-driven statistical optimization of a groundwater monitoring network

Andrea Rinaldo, Gianluca Botter

We propose a comparative study of three different methods aimed at optimizing existing groundwater monitoring networks. Monitoring piezometric heads in subsurface porous formations is crucial at regional scales to properly characterize the relevant subsurf ...

Elsevier2024

Scenario optimization for the tokamak ramp-down phase in RAPTOR: A. Analysis and model validation on ASDEX Upgrade

Olivier Sauter, Federico Alberto Alfredo Felici, Anna Teplukhina, Simon Van Mulders, Cassandre Ekta Contré, Bernhard Sieglin

We discuss how the combination of experimental observations and rapid modeling has enabled to improve understanding of the tokamak ramp-down phase in ASDEX Upgrade. A series of dedicated experiments has been performed, to disentangle the effect of individu ...

Iop Publishing Ltd2024

JPEG AIC-3 Dataset: Towards Defining the High Quality to Nearly Visually Lossless Quality Range

Touradj Ebrahimi, Vlad Hosu, Davi Nachtigall Lazzarotto, Michela Testolina

Visual data play a crucial role in modern society, and the rate at which images and videos are acquired, stored, and exchanged every day is rapidly increasing. Image compression is the key technology that enables storing and sharing of visual content in an ...

2023

On the Performance of Subjective Visual Quality Assessment Protocols for Nearly Visually Lossless Image Compression

Touradj Ebrahimi, Davi Nachtigall Lazzarotto, Michela Testolina

The past decades have witnessed rapid growth in imaging as a major form of communication between individuals. Due to recent advances in capture, storage, delivery and display technologies, consumers demand improved perceptual quality while requiring reduce ...

2023

On the assessment of high-quality images: advances on the JPEG AIC-3 activity

Touradj Ebrahimi, Evgeniy Upenik, Michela Testolina

Recent advances in image compression have made it both possible and desirable for image quality to approach the visually lossless range. However, the most commonly used subjective visual quality assessment protocols, e.g. those reported in ITU-T Rec. BT.50 ...

2023

Evaluation of the impact of lossy compression on event camera-based computer vision tasks

Touradj Ebrahimi, Davi Nachtigall Lazzarotto, Bowen Huang

In the field of image acquisition, Dynamic Vision Sensors (DVS) present an innovative methodology, capturing only the variations in pixel brightness instead of absolute values and thereby revealing unique features. Given that the primary deployment of DVS ...

2023

Evaluating the effect of sparse convolutions on point cloud compression

Touradj Ebrahimi, Davi Nachtigall Lazzarotto

The use of point clouds as an imaging modality has been rapidly growing, motivating research on compression methods to enable efficient transmission and storage for many applications. While compression standards relying on conven- tional techniques such as ...

2023

Communication-efficient distributed training of machine learning models

Thijs Vogels

In this thesis, we explore techniques for addressing the communication bottleneck in data-parallel distributed training of deep learning models. We investigate algorithms that either reduce the size of the messages that are exchanged between workers, or th ...

EPFL2023

Shafranov shift correction to the Furth-Yoshikawa scaling of tokamak adiabatic compression

Olivier Sauter

In 1970, Furth and Yoshikawa (1970 Phys. Fluids 13 2593-6) introduced the scalings of adiabatic plasma compression. Basically, if the shape of the external plasma boundary and the aspect ratio are preserved during the compression, then the density, kinetic ...

2023