Demo Data from VLDB 2026 / reviewers in the wild / expert
Hugo Dourado
dblp:357/8968
· DBLP profile ↗
2ranked-venue papers
1as first author
2since 2021 · last 2025
0000-0003-4851-1355ORCID · corroborated
Domains — the database's venue-derived domains; a paper can count in several
Applied, interdisciplinary, general and emerging computing · 2 · 1 first-author · 2 since 2021
Expertise — from the expertise taxonomy: the topics of the expert's papers under the CCF categories. A weight counts papers with recency: 1 for a paper about the topic, 0.3 when the topic is its context, halved every five years.
| Interdisciplinary, comprehensive, and emerging computing
1 paper |
Bioinformatics and computational biology · 100% |
Topics — the 1 heaviest of 1, each with the papers that count most for it
| Topic | Weight | Papers | Last | Evidence papers |
|---|---|---|---|---|
Bioinformatics and computational biology › systems biology
metabolic modeling |
0.9 | 1 | 2025 | GBA Solver: a user-friendly web server for growth balance analysis · Bioinform. 2025 |
Methods — techniques the papers use, named apart from their topics
numerical solver · 0.9
| Year | Publication | Venue | Position |
|---|---|---|---|
| 2025 | GBA Solver: a user-friendly web server for growth balance analysisabstractSUMMARY: GBA Solver is a web-based application that enables efficient construction and numerical solution of coarse-grained growth balance analysis (GBA) models containing up to 20 reactions. The platform features an intuitive spreadsheet-based interface that eliminates the need for programming, integrates kinetic parameters from the BRENDA enzyme database, and provides interactive visualizations for model exploration. By lowering technical barriers, GBA Solver makes GBA modeling accessible to a wider scientific community, expanding the computational toolkit for investigating cell metabolism and growth. AVAILABILITY AND IMPLEMENTATION: GBA Solver is freely available at: https://cellgrowthsim.com/. The source code is available at: https://doi.org/10.5281/zenodo.17250925. Sajjad Ghaffarinasab, Hugo Dourado |
Bioinform. | 2 |
| 2023 | Mathematical properties of optimal fluxes in cellular reaction networks at balanced growthabstractThe physiology of biological cells evolved under physical and chemical constraints, such as mass conservation across the network of biochemical reactions, nonlinear reaction kinetics, and limits on cell density. For unicellular organisms, the fitness that governs this evolution is mainly determined by the balanced cellular growth rate. We previously introduced growth balance analysis (GBA) as a general framework to model and analyze such nonlinear systems, revealing important analytical properties of optimal balanced growth states. It has been shown that at optimality, only a minimal subset of reactions can have nonzero flux. However, no general principles have been established to determine if a specific reaction is active at optimality. Here, we extend the GBA framework to study the optimality of each biochemical reaction, and we identify the mathematical conditions determining whether a reaction is active or not at optimal growth in a given environment. We reformulate the mathematical problem in terms of a minimal number of dimensionless variables and use the Karush-Kuhn-Tucker (KKT) conditions to identify fundamental principles of optimal resource allocation in GBA models of any size and complexity. Our approach helps to identify from first principles the economic values of biochemical reactions, expressed as marginal changes in cellular growth rate; these economic values can be related to the costs and benefits of proteome allocation into the reactions' catalysts. Our formulation also generalizes the concepts of Metabolic Control Analysis to models of growing cells. We show how the extended GBA framework unifies and extends previous approaches of cellular modeling and analysis, putting forward a program to analyze cellular growth through the stationarity conditions of a Lagrangian function. GBA thereby provides a general theoretical toolbox for the study of fundamental mathematical properties of balanced cellular growth. Hugo Dourado, Wolfram Liebermeister, Oliver Ebenhöh, Martin J. Lercher |
PLoS Comput. Biol. | 1 |