Scaling Out Bioinformatics in the Data Center

Chat with Graph Search

Ask any question about EPFL courses, lectures, exercises, research, news, etc. or try the example questions below.

DISCLAIMER: The Graph Chatbot is not programmed to provide explicit or categorical answers to your questions. Rather, it transforms your questions into API requests that are distributed across the various IT services officially administered by EPFL. Its purpose is solely to collect and recommend relevant references to content that you can explore to help you answer your questions.

Allele-specific expression (ASE) is pivotal in understanding the genetic underpinnings of phenotypic variation within species, differences in disease susceptibility, and responses to environmental factors. We processed 11 different tissue types collected f ...

In natural habitats, nutrient availability limits bacterial growth. We discovered that bacteria can overcome this limitation by acquiring nutrients by lysing neighboring cells through contact-dependent antagonism. Using single-cell live imaging and isotopi ...

Micro and nanoparticles made from polymers, metals, ceramics, and lipids are crucial for biomedical devices, energy storage, and electronics. Traditional fabrication methods like grinding, milling, and emulsification result in monolithic shapes and heterog ...

Motivation Many machine learning (ML) models developed to classify phenotype from gene expression data provide interpretations for their decisions, with the aim of understanding biological processes. For many models, including neural networks, interpretati ...

Genome-wide chromatin conformation capture assays provide formidable insights into the spatial organization of genomes. However, due to the complexity of the data structure, their integration in multi-omics workflows remains challenging. We present data st ...

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 ...

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 ...

Dataset corresponding to the following manuscript: Slagter, A., Setyadji, J.A., Vogt, E.L. et al. Nanoindentation Hardness and Modulus of Al2O3–SiO2–CaO and MnO–SiO2–FeO Inclusions in Iron. Metall Mater Trans A (2024). https://doi.org/10.1007/s11661-024-0 ...

This repository contains microphysics routines, scripts, and processed data from the Weather Research and Forecasting (WRF) model simulations presented in the paper "RaFSIP: Parameterizing ice multiplication in models using a machine learning approach", by ...

This document contains all the data and the details of the analysis used in the manuscript titled " Control of Ge island coalescence for the formation of nanowires on silicon." https://doi.org/10.1039/D3NH00573A ...

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 ...

This data set contains the data collected during the FNS project Green Piezo (Grant no. 179064) in association with the recent publication entitled “3D printing of customizable transient bioelectronics and sensors”. This work aims to study and demonstrate ...

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 ...

This paper presents a novel hybrid framework for generating and updating a synthetic population. We call it hybrid because it combines model-based and data-driven approaches. Existing generators produce a snapshot of synthetic data that becomes outdated ov ...

Enterprises collect data in large volumes and leverage them to drive numerous concurrent decisions and business processes. Their teams deploy multiple applications that often operate concurrently on the same data and infrastructure but have widely differen ...

In light of the challenges posed by climate change and the goals of the Paris Agreement, electricity generation is shifting to a more renewable and decentralized pattern, while the operation of systems like buildings is increasingly electrified. This calls ...

In this thesis we will present two results on global existence for nonlinear dispersive equations with data at or below the scaling regularity. In chapter 1 we take a probabilistic perspective to study the energy-critical nonlinear Schrödinger equation in ...

Despite the widespread use of self-tracking technologies for promoting personal wellbeing, there is limited research on the monitoring of intimate data, particularly urine. To shed light on the design possibilities within this unexplored domain we designed ...

This data package supports the publication 'Complexity of crack front geometry enhances toughness of brittle solids' by Xinyue Wei, Chenzhuo Li, Cían McCarthy, and John M. Kolinski Nature physics (2024) - https://doi.org/10.1038/s41567-024-02435-x DOI: 1 ...

Image information about the state of a building after an earthquake, which can be collected without endangering the post-earthquake reconnaissance activities, can be used to reduce uncertainties in response predictions for future seismic events. This paper ...

Scaling Out Bioinformatics in the Data Center

Chat with Graph Search

Genome-wide allele-specific expression in multi-tissue samples from healthy male baboons reveals the transcriptional complexity of mammals

Antagonism as a Foraging Strategy in Microbial Communities

Additive manufacturing of water-soluble 3D micro molds for complex-shaped lipid microparticles

A comparative analysis of gene expression profiling by statistical and machine learning approaches

Orchestrating chromosome conformation capture analysis with Bioconductor

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

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

Nanoindentation hardness and modulus of Al2O3-SiO2-CaO and MnO-SiO2-FeO inclusions in iron

Data and scripts for the RaFSIP scheme

Data set for control of Ge island coalescence for the formation of nanowires on silicon

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

Dataset for '3D printing of customizable transient bioelectronics and sensors'

Data-driven statistical optimization of a groundwater monitoring network

Hybrid Simulator for Capturing Dynamics of Synthetic Populations

Oligolithic Cross-task Optimizations across Isolated Workloads

Quantifying the Unknown: Data-Driven Approaches and Applications in Energy Systems

Probabilistic and Deterministic Wellposedness for Low Regularity Dispersive Equations

Designing for Intimate Wellbeing: Aidee, a Qualitative Approach To Urine Home Monitoring

Dataset for "Complexity of crack front geometry enhances toughness of brittle solids"

Reducing uncertainties in response predictions of earthquake-damaged masonry buildings using data from image-based inspection