A survey of Monte Carlo methods for parameter estimation

D Luengo, L Martino, M Bugallo, V Elvira… - EURASIP Journal on …, 2020 - Springer
Statistical signal processing applications usually require the estimation of some parameters
of interest given a set of observed data. These estimates are typically obtained either by …

Use of randomized sampling for analysis of metabolic networks

J Schellenberger, BØ Palsson - Journal of biological chemistry, 2009 - ASBMB
Genome-scale metabolic network reconstructions in microorganisms have been formulated
and studied for about 8 years. The constraint-based approach has shown great promise in …

[图书][B] Computational statistics

GH Givens, JA Hoeting - 2012 - books.google.com
This new edition continues to serve as a comprehensive guide to modern and classical
methods of statistical computing. The book is comprised of four main parts spanning the …

Multidimensional optimality of microbial metabolism

R Schuetz, N Zamboni, M Zampieri, M Heinemann… - Science, 2012 - science.org
Although the network topology of metabolism is well known, understanding the principles
that govern the distribution of fluxes through metabolism lags behind. Experimentally, these …

[图书][B] Monte Carlo methods in Bayesian computation

MH Chen, QM Shao, JG Ibrahim - 2012 - books.google.com
Sampling from the posterior distribution and computing posterior quanti ties of interest using
Markov chain Monte Carlo (MCMC) samples are two major challenges involved in advanced …

Stable diverse food webs become more common when interactions are more biologically constrained

G Gellner, K McCann… - Proceedings of the …, 2023 - National Acad Sciences
Ecologists have long sought to understand how diversity and structure mediate the stability
of whole ecosystems. For high-diversity food webs, the interactions between species are …

An upper limit on Gibbs energy dissipation governs cellular metabolism

B Niebel, S Leupold, M Heinemann - Nature Metabolism, 2019 - nature.com
The principles governing cellular metabolic operation are poorly understood. Because
diverse organisms show similar metabolic flux patterns, we hypothesized that a fundamental …

Insight into human alveolar macrophage and M. tuberculosis interactions via metabolic reconstructions

A Bordbar, NE Lewis, J Schellenberger… - Molecular systems …, 2010 - embopress.org
Metabolic coupling of Mycobacterium tuberculosis to its host is foundational to its
pathogenesis. Computational genome‐scale metabolic models have shown utility in …

Genome-scale metabolic modeling elucidates the role of proliferative adaptation in causing the Warburg effect

T Shlomi, T Benyamini, E Gottlieb… - PLoS computational …, 2011 - journals.plos.org
The Warburg effect-a classical hallmark of cancer metabolism-is a counter-intuitive
phenomenon in which rapidly proliferating cancer cells resort to inefficient ATP production …

Flux sampling is a powerful tool to study metabolism under changing environmental conditions

HA Herrmann, BC Dyson, L Vass… - NPJ systems biology …, 2019 - nature.com
The development of high-throughput 'omic techniques has sparked a rising interest in
genome-scale metabolic models, with applications ranging from disease diagnostics to crop …