ArticleLetters in biomathematics2023
GillesPy2: A Biochemical Modeling Framework for Simulation Driven Biological Discovery.
Article in Letters in biomathematics, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
7 citing papers in PubMed.
- Bayesian inference of gene regulatory networks at stochastic steady state.Journal of the Royal Society, Interface · 2026Article
- Multiscale learning of gene network-driven phenotypic dynamics of single cells.Molecular systems biology · 2026Article
- A hybrid framework for compartmental models enabling simulation-based inference.Journal of mathematical biology · 2026Article
- Decoupling between activation time and steady-state level in input-output responses.PLoS computational biology · 2026Article
- Bayesian Inference of Gene Regulatory Networks at Stochastic Steady State.bioRxiv : the preprint server for biology · 2026Article
- Decoupling between activation time and steady-state level in input-output responses.bioRxiv : the preprint server for biology · 2025Article
- Methods in quantitative biology-from analysis of single-cell microscopy images to inference of predictive models for stochastic gene expression.Physical biology · 2025Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
13 authors.
Funding
Abstract
Stochastic modeling has become an essential tool for studying biochemical reaction networks. There is a growing need for user-friendly and feature-complete software for model design and simulation. To address this need, we present GillesPy2, an open-source framework for building and simulating mathematical and biochemical models. GillesPy2, a major upgrade from the original GillesPy package, is now a stand-alone Python 3 package. GillesPy2 offers an intuitive interface for robust and reproducible model creation, facilitating rapid and iterative development. In addition to expediting the model creation process, GillesPy2 offers efficient algorithms to simulate stochastic, deterministic, and hybrid stochastic-deterministic models.
Indexed as
Identifiers
37655179PMC10470263What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.