Publications related to Benchmarking Image-Processing Algorithms for Biomicroscopy: Reference Datasets and Perspectives

Related publications (38)

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

Exploring Masked Autoencoders for Sensor-Agnostic Image Retrieval in Remote Sensing

Gencer Sümbül

Self-supervised learning through masked autoencoders (MAEs) has recently attracted great attention for remote sensing (RS) image representation learning, and thus embodies a significant potential for content-based image retrieval (CBIR) from ever-growing R ...

2024

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

Advancing Self-Supervised Deep Learning for 3D Scene Understanding

Seyed Mohammad Mahdi Johari

Recent advancements in deep learning have revolutionized 3D computer vision, enabling the extraction of intricate 3D information from 2D images and video sequences. This thesis explores the application of deep learning in three crucial challenges of 3D com ...

EPFL2024

THE PHASE TRANSITION FOR PLANAR GAUSSIAN PERCOLATION MODELS WITHOUT FKG

Alejandro Rivera

We develop techniques to study the phase transition for planar Gaussian percolation models that are not (necessarily) positively correlated. These models lack the property of positive associations (also known as the 'FKG inequality'), and hence many classi ...

Inst Mathematical Statistics-Ims2023

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

Debates on the dorsomedial prefrontal/dorsal anterior cingulate cortex: insights for future research

Nicolas Clairis

The dorsomedial prefrontal cortex/dorsal anterior cingulate cortex (dmPFC/dACC) is a brain area subject to many theories and debates over its function(s). Even its precise anatomical borders are subject to much controversy. In the past decades, the dmPFC/d ...

Oxford Univ Press2023

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

Why computational complexity may set impenetrable barriers for epistemic reductionism

Michael Herzog, Adrien Christophe Doerig, Christian Sachse

According to physicalism, everything is physical or metaphysically connected to the physical. If physicalism were true, it seems that we should - in principle - be able to reduce the descriptions and explanations of special sciences to physical ones, for e ...

Springer2023

Microfluidic devices for automated analysis of ingested bacteria in the Caenorhabditis elegans intestine

Farzad Rezaeianaran

In this thesis, we explored on-chip high-resolution imaging of the fate of intestinal bacteria and bacterial products in Caenorhabditis elegans (C. elegans). In the first part, we carried out high-resolution z-stack fluorescent imaging of Red Fluorescent P ...

EPFL2023

Correlating cryo-super resolution radial fluctuations and dual-axis cryo-scanning transmission electron tomography to bridge the light-electron resolution gap

Prabhu Prasad Swain

Visualization of organelles and their interactions with other features in the native cell remains a challenge in modern biology. We have introduced cryo-scanning transmission electron tomography (CSTET), which can ac-cess 3D volumes on the scale of 1 micro ...

Elsevier2023

Exploring Novel Modalities for Optical Diffraction Tomography

Amirhossein Saba Shirvan

In the past decade, optical diffraction tomography has gained a lot of attention for its ability to create label-free three-dimensional (3D) images of the refractive index distribution of biological samples using scattered fields measured through holograph ...

EPFL2023

PROBING INTRACELLULAR ELASTICITY WITH MINIMAL-HESSIAN REGISTRATION

Michaël Unser

We propose an image-based elastography method to measure the heterogeneous stiffness inside a cell and its nucleus. It uses a widely accessible setup consisting of plate compression imaged with fluorescence microscopy. Our framework recovers a spatial map ...

IEEE2023

Detecting Anomalies and Obstacles in Road Scenes

Krzysztof Maciej Lis

We address the problem of segmenting anomalies and unusual obstacles in road scenes for the purpose of self-driving safety. The objects in question are not present in the common training sets as it is not feasible to collect and annotate examples for every ...

EPFL2023

Multidisciplinary Investigation of the Gut-Brain Ecosystem in a Model of Alzheimer's Disease

Arielle Louise Planchette

The search for an understanding of the causal elements that lead to neurodegenerative diseases has motivated researchers for decades. Today, Alzheimer's disease is the most prevalent form of dementia and affects approximately fifty million people worldwide ...

EPFL2022

Nothing New Under the Sun: Novelty Constructs and Measures in Social Studies

Davide Bavato

The concept of novelty is central to questions of creativity, innovation, and discovery. Despite the prominence in scientific inquiry and everyday discourse, there is a chronic ambiguity over its meaning and a surprising variety of empirical measures, whic ...

Emerald Publishing Limited2022

Long-Term, Single-Molecule Imaging of Proteins in Live Cells with Photoregulated Fluxional Fluorophores

Pablo Rivera Fuentes, Annabell Martin, Adam Miklos Eördögh

Single-molecule localization microscopy (SMLM) can reveal nanometric details of biological samples, but its high phototoxicity hampers long-term imaging in live specimens. A significant part of this phototoxicity stems from repeated irradiations that are n ...

WILEY-V C H VERLAG GMBH2022

Model-based 3D Face Reconstruction

Christophe René Joseph Ecabert

The human face plays an essential role in social interactions as it brings information about someone's identity, state of mind, or mood. People are, by nature, very good at catching this non-spoken information. Therefore, scientists have been interested in ...

EPFL2021

Latent Mechanisms of Polarization Switching from In Situ Electron Microscopy Observations

Vasiliki Tileli, Reinis Ignatans

In situ scanning transmission electron microscopy enables observation of the domain dynamics in ferroelectric materials as a function of externally applied bias and temperature. The resultant data sets contain a wealth of information on polarization switch ...

WILEY-V C H VERLAG GMBH2022

OpenPifPaf: Composite Fields for Semantic Keypoint Detection and Spatio-Temporal Association

Alexandre Massoud Alahi, Sven Kreiss, Lorenzo Bertoni

Many image-based perception tasks can be formulated as detecting, associating and tracking semantic keypoints, e.g., human body pose estimation and tracking. In this work, we present a general framework that jointly detects and forms spatio-temporal keypoi ...

IEEE Institute of Electrical and Electronics Engineers2022