Publications related to JULIDE: a software tool for 3D reconstruction and statistical analysis of autoradiographic mouse brain sections

Related publications (30)

Aggregating Spatial and Photometric Context for Photometric Stereo

Photometric stereo, a computer vision technique for estimating the 3D shape of objects through images captured under varying illumination conditions, has been a topic of research for nearly four decades. In its general formulation, photometric stereo is an ...

EPFL2024

Spectral Estimators for High-Dimensional Matrix Inference

Farzad Pourkamali

A key challenge across many disciplines is to extract meaningful information from data which is often obscured by noise. These datasets are typically represented as large matrices. Given the current trend of ever-increasing data volumes, with datasets grow ...

EPFL2024

Development and clinical validation of computational imaging biomarkers for neurodegenerative diseases

Veronica Lily Ravano

Neurodegenerative and neuroinflammatory disorders often involve complex pathophysiological mechanisms that are â to this date â only partially understood. A more comprehensive understanding of those microstructural processes and their characterization ...

EPFL2024

Modular segmentation, spatial analysis and visualization of volume electron microscopy datasets

Martin Weigert

Volume electron microscopy is the method of choice for the in situ interrogation of cellular ultrastructure at the nanometer scale, and with the increase in large raw image datasets generated, improving computational strategies for image segmentation and s ...

Nature Portfolio2024

A FEM modelling workflow to simulate THM effects in the rock around nuclear waste packages

Matthias Timothee Stanislas Wojnarowicz

High-level waste, stemming from nuclear electricity generation poses significant environmental and safety concerns. Currently, high-level wastes are stored in interim facilities needing constant monitoring and waiting for a definitive solution. Deep geolog ...

EPFL2024

Towards Trustworthy Deep Learning for Image Reconstruction

Alexis Marie Frederic Goujon

The remarkable ability of deep learning (DL) models to approximate high-dimensional functions from samples has sparked a revolution across numerous scientific and industrial domains that cannot be overemphasized. In sensitive applications, the good perform ...

EPFL2024

Random matrix methods for high-dimensional machine learning models

Antoine Philippe Michel Bodin

In the rapidly evolving landscape of machine learning research, neural networks stand out with their ever-expanding number of parameters and reliance on increasingly large datasets. The financial cost and computational resources required for the training p ...

EPFL2024

Why is the winner the best?

Jian Wang, Ho Ling Li, Gabriel Girard, Adrien Raphaël Depeursinge

International benchmarking competitions have become fundamental for the comparative performance assessment of image analysis methods. However, little attention has been given to investigating what can be learnt from these competitions. Do they really gener ...

Ieee Computer Soc2023

We Need Subject Matter Expertise to Choose and Identify Causal Estimands: Comment on "Estimands for Recurrent Event Endpoints in the Presence of a Terminal Event"

Mats Julius Stensrud, Matias Janvin

We summarize what we consider to be the two main limitations of the "Estimands for Recurrent Event Endpoints in the Presence of a Terminal Event" (Schmidli et al. 2022). First, the authors did not give detailed guidance on how to choose an appropriate esti ...

TAYLOR & FRANCIS INC2023

Machine Learning Security in Industry: A Quantitative Survey

Kathrin Grosse

Despite the large body of academic work on machine learning security, little is known about the occurrence of attacks on machine learning systems in the wild. In this paper, we report on a quantitative study with 139 industrial practitioners. We analyze at ...

IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC2023

Automated neuron tracking inside moving and deforming C. elegans using deep learning and targeted augmentation

Ariane Andrée Marie Delrocq, Sahand Jamal Rahi

Reading out neuronal activity from three-dimensional (3D) functional imaging requires segmenting and tracking individual neurons. This is challenging in behaving animals if the brain moves and deforms. The traditional approach is to train a convolutional n ...

Nature Publishing Group2023

An Unbiased Method of Measuring the Ratio of Two Data Sets

Jean-Paul Richard Kneib, Huanyuan Shan

In certain cases of astronomical data analysis, the meaningful physical quantity to extract is the ratio R between two data sets. Examples include the lensing ratio, the interloper rate in spectroscopic redshift samples, and the decay rate of gravitational ...

IOP Publishing Ltd2023

SAGTTA: SALIENCY GUIDED TEST TIME AUGMENTATION FOR MEDICAL IMAGE SEGMENTATION ACROSS VENDOR DOMAIN SHIFT

Seyedbehzad Bozorgtabar, Devavrat Tomar

Test time augmentation has been shown to be an effective approach to combat domain shifts in deep learning. Despite their promising performance levels, the interpretability of the underlying used models is however low. Saliency maps have been widely used i ...

IEEE2023

3D reconstruction of curvilinear one-dimensional objects viewed in transmission electron microscopy

Gulnaz Ganeeva

To obtain a more complete understanding of material microstructure at the nanoscale and to gain profound insights into their properties, there is a growing need for more efficient and precise methods that can streamline the process of 3D imaging using a tr ...

EPFL2023

Functional neuroimaging options for tinnitus

Patrick Karl Alois Neff

Background: The pathophysiology behind tinnitus is still not well understood. Different imaging methods help in the understanding of the complex relationships that lead to the perception of tinnitus.Objective: Herein, different functional imaging methods t ...

SPRINGER2023

Static and Dynamic Stochastic Analysis of a Temperature-Sensitive VO2 Spiking Neuron

Mihai Adrian Ionescu, Teodor Rosca

In this work, we investigate the intrinsic cycle-to-cycle variations in a spiking temperature-sensitive neuron, based on the resistive switching of a Vanadium dioxide (VO2) two-terminal device. We study how this phenomenon impacts the spike rate jitter, an ...

IEEE2023

Acquaintances or Familiar Strangers? How Similarity and Spatial Proximity Shape Neighbour Relations within Residential Buildings

Maxime Carl Felder

While scholars have long established that city dwellers choose with whom to develop relationships on the basis of social proximity, spatial proximity remains the basis for neighbour relations involving greetings, social conversation, and the exchange of se ...

ROUTLEDGE JOURNALS, TAYLOR & FRANCIS LTD2023

Multi-site, Multi-domain Airway Tree Modeling

Jiancheng Yang

Open international challenges are becoming the de facto standard for assessing computer vision and image analysis algorithms. In recent years, new methods have extended the reach of pulmonary airway segmentation that is closer to the limit of image resolut ...

Elsevier2023

Different responses of mice and rats hippocampus CA1 pyramidal neurons to in vitro and in vivo-like inputs

Ying Shi, Armando Romani, Maurizio Ferdinando Pezzoli

The fundamental role of any neuron within a network is to transform complex spatiotemporal synaptic input patterns into individual output spikes. These spikes, in turn, act as inputs for other neurons in the network. Neurons must execute this function acro ...

2023

Validation of semi-analytical, semi-empirical covariance matrices for two-point correlation function for early DESI data

Cheng Zhao

We present an extended validation of semi-analytical, semi-empirical covariance matrices for the two-point correlation function (2PCF) on simulated catalogs representative of luminous red galaxies (LRGs) data collected during the initial 2 months of operat ...

OXFORD UNIV PRESS2023