Frontiers in Systems Biology

Specialty Grand Challenge

Published on 17 Jun 2024

Specialty grand challenge: how can we use integrative approaches to understand microbial community dynamics?

Umer Zeeshan Ijaz
Aqsa Ameer
Farrukh Saleem
Farzana Gul
Ciara Keating
Sundus Javed

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1432791

3,333 views
4 citations

Original Research

Published on 07 Jun 2024

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1384481

2,730 views
7 citations

Mini Review

Published on 03 Jun 2024

De novo prediction of functional effects of genetic variants from DNA sequences based on context-specific molecular information

Jiaxin Yang
Sikta Das Adhikari
Hao Wang
Binbin Huang
Wenjie Qi
Yuehua Cui
Jianrong Wang

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1402664

3,699 views
2 citations

Original Research

Published on 30 May 2024

Surface-displayed silicatein-α enzyme in bioengineered E. coli enables biocementation and silica mineralization

Toriana N. Vigil
Nikolas K. Schwendeman
Melanie L. M. Grogger
Victoria L. Morrison
Margaret C. Warner
Nathaniel B. Bone
Morgan T. Vance
David C. Morris
Kristi McElmurry
Bryan W. Berger

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1377188

3,817 views

Review

Published on 29 Apr 2024

Crosstalking with dendritic cells: a path to engineer advanced T Cell immunotherapy

Sogand Schafer
Kaige Chen
Leyuan Ma

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1372995

6,146 views
4 citations

Original Research

Published on 25 Apr 2024

Elucidating a genomic signature associated with behavioral and executive function after moderate to severe pediatric TBI: a systems biology informed approach

Brad G. Kurowski
Amery Treble-Barna
Valentina Pilipenko
Lisa J. Martin
Anil G. Jegga
Aimee E. Miley
Nanhua Zhang
Anthony Fabio
Ranjit S. Chima
Anna-Lynne R. Adlam

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1293265

2,573 views

Technology and Code

Published on 18 Apr 2024

Context-aware knowledge selection and reliable model recommendation with ACCORDION

Yasmine Ahmed
Cheryl A. Telmer
Gaoxiang Zhou
Natasa Miskov-Zivanov

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1308292

2,247 views
8 citations

Review

Published on 09 Apr 2024

A review of mathematical modeling of bone remodeling from a systems biology perspective

Carley V. Cook
Ariel M. Lighty
Brenda J. Smith
Ashlee N. Ford Versypt

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1368555

11,700 views
16 citations

Original Research

Published on 09 Apr 2024

Forecasting SARS-CoV-2 spike protein evolution from small data by deep learning and regression

Samuel King
Xinyi E. Chen
Sarah W. S. Ng
Kimia Rostin
Samuel V. Hahn
Tylo Roberts
Janella C. Schwab
Parneet Sekhon
Madina Kagieva
Taylor Reilly

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1284668

11,560 views
4 citations

Perspective

Published on 03 Apr 2024

Is there room in epilepsy for the claustrum?

Glenn D. R. Watson
Stefano Meletti
Anil K. Mahavadi
Pierre Besson
S. Kathleen Bandt
Jared B. Smith

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1385112

3,136 views
2 citations

Original Research

Published on 03 Apr 2024

Intein-mediated thyroid hormone biosensors: towards controlled delivery of hormone therapy

Quim Martí-Baena
Andreu Pascuet-Fontanet
Tomas Berjaga-Buisan
Miriam Caravaca-Rodríguez
Jaume Puig-Costa-Jussà
Avencia Sanchez-Mejias
Dimitrije Ivančić
Sira Mogas-Díez
Marc Güell
Javier Macia

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1270071

3,871 views
2 citations

Original Research

Published on 27 Mar 2024

In silico biomarker analysis of the adverse effects of perfluorooctane sulfonate (PFOS) exposure on the metabolic physiology of embryo-larval zebrafish

Rayna M. Nolen
Lene H. Petersen
Karl Kaiser
Antonietta Quigg
David Hala

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1367562

2,938 views
1 citation

Original Research

Published on 25 Mar 2024

Mathematical modeling of temperature-induced circadian rhythms

Lingjun Lu
Yannuo Li
Rene Schloss
Ioannis P. Androulakis

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1256398

3,354 views
1 citation

Methods

Published on 21 Mar 2024

A robust ensemble feature selection approach to prioritize genes associated with survival outcome in high-dimensional gene expression data

Phi Le
Xingyue Gong
Leah Ung
Hai Yang
Bridget P. Keenan
Li Zhang
Tao He

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1355595

3,056 views
6 citations

Original Research

Published on 15 Mar 2024

Calcium oscillations in HEK293 cells lacking SOCE suggest the existence of a balanced regulation of IP3 production and degradation

Clara Octors
Ryan E. Yoast
Scott M. Emrich
Mohamed Trebak
James Sneyd

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1343006

2,849 views
1 citation

Mini Review

Published on 13 Mar 2024

Computational insights in cell physiology

Geneviève Dupont
Didier Gonze

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1335885

1,855 views

Original Research

Published on 08 Mar 2024

Uncertainty quantified discovery of chemical reaction systems via Bayesian scientific machine learning

Emily Nieves
Raj Dandekar
Chris Rackauckas

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1338518

6,691 views
6 citations

Perspective

Published on 08 Mar 2024

Advancing precision medicine therapeutics for Parkinson’s utilizing a shared quantitative systems pharmacology model and framework

Christopher Denaro
Diane Stephenson
Martijn L. T. M. Müller
Benedetto Piccoli
Karim Azer

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1351555

4,622 views
6 citations

Perspective

Published on 08 Mar 2024

Integrating inverse reinforcement learning into data-driven mechanistic computational models: a novel paradigm to decode cancer cell heterogeneity

Patrick C. Kinnunen
Kenneth K. Y. Ho
Siddhartha Srivastava
Chengyang Huang
Wanggang Shen
Krishna Garikipati
Gary D. Luker
Nikola Banovic
Xun Huan
Jennifer J. Linderman

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1333760

3,077 views
2 citations

Specialty Grand Challenge

Published on 06 Mar 2024

Expanding our thought horizons in systems biology and medicine

Jennifer C. Lovejoy

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1385458

2,588 views
3 citations

Original Research

Published on 01 Mar 2024

Assessing electrogenetic activation via a network model of biological signal propagation

Kayla Chun
Eric VanArsdale
Elebeoba May
Gregory F. Payne
William E. Bentley

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1291293

2,766 views
2 citations

Original Research

Published on 01 Mar 2024

Pareto task inference analysis reveals cellular trade-offs in diffuse large B-Cell lymphoma transcriptomic data

Jonatan Blais
Julie Jeukens

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1346076

2,281 views

Perspective

Published on 27 Feb 2024

BioModels’ Model of the Year 2023

Rahuman S. Malik Sheriff
Hiroki Asari
Henning Hermjakob
Wolfgang Huber
Thomas Quail
Silvia D. M. Santos
Amber M. Smith
Virginie Uhlmann

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1363884

3,811 views

Original Research

Published on 15 Feb 2024

Computational inference of chemokine-mediated roles for the vagus nerve in modulating intra- and inter-tissue inflammation

Ashti M. Shah
Ruben Zamora
Derek Barclay
Jinling Yin
Fayten El-Dehaibi
Meghan Addorisio
Tea Tsaava
Aisling Tynan
Kevin Tracey
Sangeeta S. Chavan

Frontiers in Systems Biology

doi 10.3389/fsysb.2024.1266279

2,017 views
2 citations

170 Publications

volumes

Volume 4 - 2024

Specialty grand challenge: how can we use integrative approaches to understand microbial community dynamics?

Building an Adverse Outcome Pathway network for COVID-19

De novo prediction of functional effects of genetic variants from DNA sequences based on context-specific molecular information

Surface-displayed silicatein-α enzyme in bioengineered E. coli enables biocementation and silica mineralization

Crosstalking with dendritic cells: a path to engineer advanced T Cell immunotherapy

Elucidating a genomic signature associated with behavioral and executive function after moderate to severe pediatric TBI: a systems biology informed approach

Context-aware knowledge selection and reliable model recommendation with ACCORDION

A review of mathematical modeling of bone remodeling from a systems biology perspective

Forecasting SARS-CoV-2 spike protein evolution from small data by deep learning and regression

Is there room in epilepsy for the claustrum?

Intein-mediated thyroid hormone biosensors: towards controlled delivery of hormone therapy

In silico biomarker analysis of the adverse effects of perfluorooctane sulfonate (PFOS) exposure on the metabolic physiology of embryo-larval zebrafish

Mathematical modeling of temperature-induced circadian rhythms

A robust ensemble feature selection approach to prioritize genes associated with survival outcome in high-dimensional gene expression data

Calcium oscillations in HEK293 cells lacking SOCE suggest the existence of a balanced regulation of IP3 production and degradation

Computational insights in cell physiology

Uncertainty quantified discovery of chemical reaction systems via Bayesian scientific machine learning

Advancing precision medicine therapeutics for Parkinson’s utilizing a shared quantitative systems pharmacology model and framework

Integrating inverse reinforcement learning into data-driven mechanistic computational models: a novel paradigm to decode cancer cell heterogeneity

Expanding our thought horizons in systems biology and medicine

Assessing electrogenetic activation via a network model of biological signal propagation

Pareto task inference analysis reveals cellular trade-offs in diffuse large B-Cell lymphoma transcriptomic data

BioModels’ Model of the Year 2023

Computational inference of chemokine-mediated roles for the vagus nerve in modulating intra- and inter-tissue inflammation