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Automated high-content phenotyping from the first larval stage till the onset of adulthood of the nematode Caenorhabditis elegans

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Publications associées (33)

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Automated phenotyping of Caenorhabditis elegans embryos with a high-throughput-screening microfluidic platform

Martinus Adela Maria Gijs, Matteo Cornaglia, Raphaël Etienne Jean Trouillon, Hüseyin Baris Atakan

The nematode Caenorhabditis elegans has been extensively used as a model multicellular organism to study the influence of osmotic stress conditions and the toxicity of chemical compounds on developmental and motility-associated phenotypes. However, the sev ...

2020

Multi-ion-sensing emulator and multivariate calibration optimization by machine learning models

Giovanni De Micheli, Sandro Carrara, Francesca Criscuolo, Mandresy Ivan Ny Hanitra

One paramount challenge in multi-ion-sensing arises from ion interference that degrades the accuracy of sensor calibration. Machine learning models are here proposed to optimize such multivariate calibration. However, the acquisition of big experimental da ...

2021

Counting People by Estimating People Flows

Pascal Fua, Mathieu Salzmann, Weizhe Liu

Modern methods for counting people in crowded scenes rely on deep networks to estimate people densities in individual images. As such, only very few take advantage of temporal consistency in video sequences, and those that do only impose weak smoothness co ...

2022

A Crowdsourced Gameplay for Whole-Genome Assembly via Short Reads

Kalpani Anuradha Welivita

Next-generation sequencing has revolutionized the field of genomics by producing accurate, rapid and cost-effective genome analysis with the use of high throughput sequencing technologies. This has intensified the need for accurate and performance efficien ...

2020

Estimating Nonplanar Flow from 2D Motion-blurred Widefield Microscopy Images via Deep Learning

Michael Stefan Daniel Liebling, Adrian Shajkofci

Optical flow is a method aimed at predicting the movement velocity of any pixel in the image and is used in medicine and biology to estimate flow of particles in organs or organelles. However, a precise optical flow measurement requires images taken at hig ...

IEEE2021

Genomic Analysis of European Drosophila melanogaster Populations Reveals Longitudinal Structure, Continent-Wide Selection, and Previously Unknown DNA Viruses

Bart Deplancke

Genetic variation is the fuel of evolution, with standing genetic variation especially important for short-term evolution and local adaptation. To date, studies of spatiotemporal patterns of genetic variation in natural populations have been challenging, a ...

2020

Genome Sequence Alignment - Design Space Exploration for Optimal Performance and Energy Architectures

David Atienza Alonso, Marina Zapater Sancho, Yasir Mahmood Qureshi

Next generation workloads, such as genome sequencing, have an astounding impact in the healthcare sector. Sequence alignment, the first step in genome sequencing, has experienced recent breakthroughs, which resulted in next generation sequencing (NGS). As ...

2020

How Asynchronous Events Encode Video

Martin Vetterli, Adam James Scholefield, Karen Adam

As event-based sensing gains in popularity, theoretical understanding is needed to harness this technology’s potential. Instead of recording video by capturing frames, event-based cameras have sensors that emit events when their inputs change, thus encodin ...

IEEE2021

Intestinal organoid cocultures with microbes

Devanjali Dutta

This protocol comprises various methods to coculture organoids (particularly human small intestinal and colon organoids) with microbes, including microinjection into the lumen and periphery of 3D organoids and exposure of organoids to microbes in a 2D laye ...

NATURE PORTFOLIO2021

Privacy-preserving semi-parallel logistic regression training with fully homomorphic encryption

Juan Ramón Troncoso-Pastoriza

Background Privacy-preserving computations on genomic data, and more generally on medical data, is a critical path technology for innovative, life-saving research to positively and equally impact the global population. It enables medical research algorithm ...

2020

Early detection and surveillance of SARS-CoV-2 genomic variants in wastewater using COJAC

Tamar Kohn, Timothy R. Julian, Xavier Fernandez Cassi, Federica Cariti, Alex Tunas Corzon

The continuing emergence of SARS-CoV-2 variants of concern and variants of interest emphasizes the need for early detection and epidemiological surveillance of novel variants. We used genomic sequencing of 122 wastewater samples from three locations in Swi ...

2022

Computational study of transcription factor binding sites

Romain Fernand Pietro Groux

Any living organism contains a whole set of instructions encoded as genes on the DNA. This set of instructions contains all the necessary information that the organism will ever need, from its development to a mature individual to environment specific resp ...

EPFL2020

Adaptive hot water production based on Supervised Learning

Alexandre Massoud Alahi, Dolaana Khovalyg, Amirreza Heidari

A major challenge in the common approach of hot water generation in residential houses lies in the highly stochastic nature of domestic hot water (DHW) demand. Learning hot water use behavior enables water heating systems to continuously adapt to the stoch ...

2021