Publications related to How many bootstrap replicates are necessary?

Related publications (36)

Dual Isotope Analysis Reveals Phylogenetic Patterns and Novel Insights Into Methoxy Group Synthesis of Structural Biomolecules in Leaf and Woody Plant Tissues

Stable carbon and hydrogen isotopes of wood methoxy groups (δ2Hmeth, δ13Cmeth), mainly sourced by structural biomolecules like lignin and pectin, provide important insights into climatic, hydrological and physiological conditions. This study systematically ...

Wiley2025

Towards Self-Supervised Covariance Estimation in Deep Heteroscedastic Regression

Mathieu Salzmann, Alexandre Massoud Alahi, Megh Hiren Shukla

Deep heteroscedastic regression models the mean and covariance of the target distribution through neural networks. The challenge arises from heteroscedasticity, which implies that the covariance is sample dependent and is often unknown. Consequently, recen ...

ICLR2025

Improved bounds and inference on optimal regimes

Mats Julius Stensrud, Aaron Leor Sarvet, Julien David Laurendeau

Point identification of causal effects requires strong assumptions that are unreasonable in many practical settings. However, bounds on these effects can often be derived under plausible assumptions. Even when these bounds are wide or cover null effects, t ...

Informa UK Limited2025

The microbial genomics of glacier-fed streams: adaptations to an extreme ecosystem

Massimo Bourquin

Glacier-fed streams are the cold, ultra-oligotrophic, and unstable streams that are fed by glacial meltwater. Despite these extreme conditions, they harbour a diverse and abundant microbial diversity that develops into biofilms, covering the boulders and s ...

EPFL2024

OASIS: An integrated optimisation framework for activity scheduling

Janody Pougala

Activity-based models offer the potential for a far deeper understanding of daily mobility behaviour than trip-based models. Based on the fundamental assumption that travel demand is derived from the need to do activities, they are flexible tools that aim ...

EPFL2024

Graph generative deep learning models with an application to circuit topologies

Igor Krawczuk

Modern integrated circuits are tiny yet incredibly complex technological artifacts, composed of millions and billions of individual structures working in unison. Managing their complexity and facilitating their design drove part of the co-evolution of mode ...

EPFL2024

Bacterial diversity dominates variable macrophage responses of tuberculosis patients in Tanzania

Jacques Fellay, Zhi Ming Xu

The Mycobacterium tuberculosis complex (MTBC) comprises nine human-adapted lineages that differ in their geographical distribution. Local adaptation of specific MTBC genotypes to the respective human host population has been invoked in this context. We aim ...

Nature Portfolio2024

Distribution Testing with a Confused Collector

Nathaniel Idein Harms

We are interested in testing properties of distributions with systematically mislabeled samples. Our goal is to make decisions about unknown probability distributions, using a sample that has been collected by a confused collector, such as a machine-learni ...

Schloss Dagstuhl- Leibniz-Zentrum fur Informatik GmbH, Dagstuhl Publishing2024

Live-cell imaging powered by computation

Suliana Manley

The proliferation of microscopy methods for live-cell imaging offers many new possibilities for users but can also be challenging to navigate. The prevailing challenge in live-cell fluorescence microscopy is capturing intra-cellular dynamics while preservi ...

Nature Portfolio2024

Transposon-activated POU5F1B promotes colorectal cancer growth and metastasis

Didier Trono, Laurence Gouzi Abrami, Julien Léonard Duc, Sandra Eloise Kjeldsen, Evaristo Jose Planet Letschert, Alexandre Coudray, Laia Simo Riudalbas, Sagane Dind

The treatment of colorectal cancer (CRC) is an unmet medical need in absence of early diagnosis. Here, upon characterizing cancer-specific transposable element-driven transpochimeric gene transcripts (TcGTs) produced by this tumor in the SYSCOL cohort, we ...

Nature Research2022

Phylogenetic estimation of the viral fitness landscape of HIV-1 set-point viral load

Jacques Fellay

Set-point viral load (SPVL), a common measure of human immunodeficiency virus (HIV)-1 virulence, is partially determined by viral genotype. Epidemiological evidence suggests that this viral property has been under stabilising selection, with a typical opti ...

OXFORD UNIV PRESS2022

HIERARCHICAL MARKOV CHAIN MONTE CARLO METHODS FOR BAYESIAN INVERSE PROBLEMS

Juan Pablo Madrigal Cianci

This thesis is devoted to the construction, analysis, and implementation of two types of hierarchical Markov Chain Monte Carlo (MCMC) methods for the solution of large-scale Bayesian Inverse Problems (BIP). The first hierarchical method we present is base ...

EPFL2022

Impact of phylogeny on structural contact inference from protein sequence data

Anne-Florence Raphaëlle Bitbol, Umberto Lupo, Nicola Dietler

Local and global inference methods have been developed to infer structural contacts from multiple sequence alignments of homologous proteins. They rely on correlations in amino acid usage at contacting sites. Because homologous proteins share a common ance ...

ROYAL SOC2023

Parallel faceted imaging in radio interferometry via proximal splitting (Faceted HyperSARA) - II. Code and real data proof of concept

Jean-Philippe Thiran, Ming Jiang

In a companion paper, a faceted wideband imaging technique for radio interferometry, dubbed Faceted HyperSARA, has been introduced and validated on synthetic data. Building on the recent HyperSARA approach, Faceted HyperSARA leverages the splitting functio ...

OXFORD UNIV PRESS2023

The microbiome of cryospheric ecosystems

Tom Ian Battin, Hannes Markus Peter, Tyler Joe Kohler, Susheel Bhanu Busi, Grégoire Marie Octave Edouard Michoud, Stylianos Fodelianakis, Massimo Bourquin, Leïla Ezzat

The cryosphere includes those parts of Earth where water or soil is frozen, such as snow, ice, glaciers and permafrost soils. Here, the authors present a global inventory of cryospheric microbial communities and their genetic repertoires. ...

Nature Portfolio2022

Spatiotemporal wildfire modeling through point processes with moderate and extreme marks

Jonathan Koh Boon Han

Accurate spatiotemporal modeling of conditions leading to moderate and large wildfires provides better understanding of mechanisms driving fire-prone ecosystems and improves risk management. Here, we develop a joint model for the occurrence intensity and t ...

2023

cRacklet: a spectral boundary integral method library for interfacial rupture simulation

Jean-François Molinari, Fabian Barras, Thibault Didier Roch

The study of dynamically propagating rupture along interfaces is of prime importance in various fields and system sizes, including tribology (nm to m), engineering (mm to m) and geophysics (m to km) (Armstrong-Hélouvry et al., 1994; Ben-Zion, 2008; Vanossi ...

2022

Analysis of a Class of Multilevel Markov Chain Monte Carlo Algorithms Based on Independent Metropolis–Hastings

Fabio Nobile, Juan Pablo Madrigal Cianci

In this work, we present, analyze, and implement a class of multilevel Markov chain Monte Carlo(ML-MCMC) algorithms based on independent Metropolis--Hastings proposals for Bayesian inverse problems. In this context, the likelihood function involves solving ...

2023

Computational tools and resources for designing new pathways to small molecules

Vassily Hatzimanikatis, Anastasia Sveshnikova

The metabolic engineering community relies on computational methods for pathway design to produce important small molecules in microbial hosts. Metabolic network databases are continuously curated and updated with known and novel reactions that expand the ...

CURRENT BIOLOGY LTD2022

BigNeuron: a resource to benchmark and predict performance of algorithms for automated tracing of neurons in light microscopy datasets

Pascal Fua, Sean Lewis Hill, Jiancheng Yang, Amos Sironi, Jian Yang

BigNeuron is an open community bench-testing platform with the goal of setting open standards for accurate and fast automatic neuron tracing. We gathered a diverse set of image volumes across several species that is representative of the data obtained in m ...

Nature Publishing Group2023