Frontiers in Systems Biology

Original Research

Published on 08 Dec 2025

BioMedKG: multimodal contrastive representation learning in augmented BioMedical knowledge graphs

in Data and Model Integration

Tien Dang
Viet Thanh Duy Nguyen
Minh Tuan Le
Truong-Son Hy

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1651930

633 views

Original Research

Published on 03 Dec 2025

Towards effective cystic fibrosis gene therapy by optimizing prime editing and pulmonary-targeted LNPs

in Integrative Genetics and Genomics

Kaya Sophie Lange
Lisa Marie Wiesner
Kathleen Susat
Vera Köhler
Malte Lenger
Christian Alexander Michalek
Anna-Lena Baack
Philip Frederic Mundt
Kai Kanthak
Isabell Alexandra Guckes

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1603749

1,214 views

Original Research

Accepted on 24 Nov 2025

Neural Networks and Foundation Models: Two Strategies for EEG-to-fMRI Prediction

in Integrative Systems Neuroscience

Maël Donoso

Frontiers in Systems Biology

239 views

Original Research

Accepted on 05 Nov 2025

A Synthetic Biology Toolkit for rational design of genetic circuits in Acinetobacter baumannii

in Integrative Systems Microbiology

Sara Letrari
Lisa Faccincani
Ilgin Ertan
Tommaso Varaschin
Francesca Galiazzo
Marco Costanzo
Giorgia D'Angelo
Valentina Del Giudice
Luca Guarnieri
Alex Martini

Frontiers in Systems Biology

506 views

Original Research

Published on 27 Oct 2025

The role of neutrophil-to-lymphocyte ratio in the prognosis of chronic kidney disease: insights from the NHANES cohort study

in Data and Model Integration

Ying Liu
Ru Wang
Jinguo Yuan
Jin Zhao

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1656683

900 views

Correction

Published on 27 Oct 2025

Correction: MicrobiomeKG: bridging microbiome research and host health through knowledge graphs

in Integrative Systems Microbiology

Frontiers Production Office

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1710604

707 views

Correction

Published on 23 Oct 2025

Correction: A guide to bayesian networks software for structure and parameter learning, with a focus on causal discovery tools

in Data and Model Integration

Francesco Canonaco
Joverlyn Gaudillo
Nicole Astrologo
Fabio Stella
Enzo Acerbi

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1717030

792 views

Hypothesis and Theory

Published on 21 Oct 2025

Structural properties and asymptotic behavior of bacterial two-component systems

in Multiscale Mechanistic Modeling

Irene Zorzan
Chiara Cimolato
Luca Schenato
Massimo Bellato

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1693064

1,093 views

Original Research

Published on 17 Oct 2025

Dietary composition and fasting regimens differentially impact the gut microbiome and short-chain fatty acid profile in a Pakistani cohort

in Integrative Systems Microbiology

Farzana Gul
Hilde Herrema
Aqsa Ameer
Mark Davids
Arshan Nasir
Konstantinos Gerasimidis
Umer Zeeshan Ijaz
Sundus Javed

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1622753

2,253 views

Original Research

Published on 14 Oct 2025

Aging and activity patterns: actigraphy evidence from NHANES studies

in Translational Systems Biology and In Silico Trials

Wen Luo
Matthew T. Scharf
Ioannis P. Androulakis

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1632110

1,456 views

Original Research

Published on 29 Sep 2025

GETgene-AI: a framework for prioritizing actionable cancer drug targets

in Data and Model Integration

Adrian Gu
Jake Y. Chen

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1649758

2,803 views

Original Research

Published on 15 Sep 2025

Digital patient modeling identifies predictive biomarkers of regorafenib response in elderly metastatic colorectal cancer

in Translational Systems Biology and In Silico Trials

Juan Manuel García-Illarramendi
Pedro Matos-Filipe
Jose Manuel Mas
Judith Farrés
Xavier Daura

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1648559

1,718 views

Review

Published on 12 Sep 2025

Bridging academia and industry: advancing systems biology and QSP education through AstraZeneca’s collaborative partnerships

in Systems Concepts, Theory and Policy in Biology and Medicine

Cesar Pichardo-Almarza
Holly Kimko

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1627214

1,837 views

Brief Research Report

Published on 29 Aug 2025

MicrobiomeKG: bridging microbiome research and host health through knowledge graphs

in Integrative Systems Microbiology

Skye L. Goetz
Amy K. Glen
Gwênlyn Glusman

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1544432

2,739 views
2 citations

Mini Review

Published on 25 Aug 2025

A guide to bayesian networks software for structure and parameter learning, with a focus on causal discovery tools

in Data and Model Integration

Francesco Canonaco
Joverlyn Gaudillo
Nicole Astrologo
Fabio Stella
Enzo Acerbi

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1631901

3,254 views
1 citation

Methods

Published on 22 Aug 2025

From flux analysis to self contained cellular models

in Systems Concepts, Theory and Policy in Biology and Medicine

Andreas Kremling

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1546072

1,576 views
2 citations

Original Research

Published on 14 Aug 2025

A model-based design strategy to engineer miRNA-regulated detection systems

in Translational Systems Biology and In Silico Trials

Renske J. Verkuijlen
Robert W. Smith

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1601854

1,576 views

Review

Published on 08 Aug 2025

Unraveling the role of mobile genetic elements in antibiotic resistance transmission and defense strategies in bacteria

in Integrative Systems Microbiology

Ranjith Kumavath
Puja Gupta
Eswar Rao Tatta
Mahima S. Mohan
Simi Asma Salim
Siddhardha Busi

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1557413

4,761 views
4 citations

Original Research

Published on 30 Jul 2025

A Pseudomonas fluorescens AND-gate biosensor for protein expression at plant root proximity

in Integrative Genetics and Genomics

Nico van Donk
Antoine Raynal
Enrique Asin-Garcia

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1620608

2,400 views

Methods

Published on 03 Jul 2025

Learning Gaussian graphical models from correlated data

in Data and Model Integration

Zeyuan Song
Sophia Gunn
Stefano Monti
Gina M. Peloso
Ching-Ti Liu
Kathryn Lunetta
Paola Sebastiani

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1589079

1,654 views

Original Research

Published on 01 Jul 2025

Inflammation mediated brain damage and cytokine expression in a maternally derived murine model for preterm hypoxic-ischemic encephalopathy

in Integrative Systems Neuroscience

Tyler C. Hillman
Braeden Jacobson
Kiara Piaggio Hurtado De Medoza
Marlene Lopez
Nicholas Iwakoshi
Christopher G. Wilson

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1517712

2,595 views

Perspective

Published on 30 May 2025

Exploring the disconnect: mechanisms underpinning the absence of physical function improvement with SGLT2 inhibitors

in Systems Concepts, Theory and Policy in Biology and Medicine

Cian Sutcliffe
Jack A. Sargeant
Thomas Yates
Melanie J. Davies
Luke A. Baker

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1593229

2,037 views

Mini Review

Published on 30 May 2025

Enzyme-displaying spores as a novel strategy for mixed fiber textile recycling

in Integrative Systems Microbiology

Matti Lehmann
Max Herrmann

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1603731

2,599 views

Original Research

Published on 21 May 2025

Mathematical modeling of pharmacokinetics and pharmacodynamics of losartan in relation to CYP2C9 allele variants

in Multiscale Mechanistic Modeling

Dmitry Babaev
Elena Kutumova
Fedor Kolpakov

Frontiers in Systems Biology

doi 10.3389/fsysb.2025.1504077

2,566 views
2 citations

168 articles

articles

BioMedKG: multimodal contrastive representation learning in augmented BioMedical knowledge graphs

Towards effective cystic fibrosis gene therapy by optimizing prime editing and pulmonary-targeted LNPs

Neural Networks and Foundation Models: Two Strategies for EEG-to-fMRI Prediction

A Synthetic Biology Toolkit for rational design of genetic circuits in Acinetobacter baumannii

The role of neutrophil-to-lymphocyte ratio in the prognosis of chronic kidney disease: insights from the NHANES cohort study

Correction: MicrobiomeKG: bridging microbiome research and host health through knowledge graphs

Correction: A guide to bayesian networks software for structure and parameter learning, with a focus on causal discovery tools

Structural properties and asymptotic behavior of bacterial two-component systems

Dietary composition and fasting regimens differentially impact the gut microbiome and short-chain fatty acid profile in a Pakistani cohort

Aging and activity patterns: actigraphy evidence from NHANES studies

GETgene-AI: a framework for prioritizing actionable cancer drug targets

Digital patient modeling identifies predictive biomarkers of regorafenib response in elderly metastatic colorectal cancer

Bridging academia and industry: advancing systems biology and QSP education through AstraZeneca’s collaborative partnerships

MicrobiomeKG: bridging microbiome research and host health through knowledge graphs

A guide to bayesian networks software for structure and parameter learning, with a focus on causal discovery tools

From flux analysis to self contained cellular models

A model-based design strategy to engineer miRNA-regulated detection systems

Unraveling the role of mobile genetic elements in antibiotic resistance transmission and defense strategies in bacteria

A Pseudomonas fluorescens AND-gate biosensor for protein expression at plant root proximity

Learning Gaussian graphical models from correlated data

Inflammation mediated brain damage and cytokine expression in a maternally derived murine model for preterm hypoxic-ischemic encephalopathy

Exploring the disconnect: mechanisms underpinning the absence of physical function improvement with SGLT2 inhibitors

Enzyme-displaying spores as a novel strategy for mixed fiber textile recycling

Mathematical modeling of pharmacokinetics and pharmacodynamics of losartan in relation to CYP2C9 allele variants