Scope & Disciplinary Integration

Systems biology synthesizes molecular-scale data into coherent frameworks that predict, explain, and control biological behaviors. JSB publishes research spanning:

Gene Regulatory Networks

Transcriptional control circuits, epigenetic regulation, chromatin dynamics, enhancer-promoter interactions, and feedback loops governing gene expression.

Protein Interaction Networks

Protein-protein interaction mapping, structural biology, post-translational modifications, allosteric regulation, and network topology analysis.

Metabolic Pathway Modeling

Flux balance analysis, constraint-based modeling, metabolomics integration, pathway reconstruction, and enzyme kinetics.

Signaling Pathway Dynamics

Cell signaling cascades, receptor activation, crosstalk between pathways, spatiotemporal signal propagation, and pathway perturbation analysis.

Omics Data Integration

Multi-omics analysis (genomics, transcriptomics, proteomics, metabolomics), data fusion algorithms, and network-based biomarker discovery.

Mathematical & Computational Methods

Differential equations, stochastic modeling, machine learning, network inference, algorithm development, and simulation software.

JSB emphasizes the molecular and cellular underpinnings of biological systems. We prioritize foundational research over clinical applications, focusing on mechanisms, pathways, and computational tools that advance systems-level comprehension.

Computational Innovation: JSB encourages submissions featuring novel algorithms, modeling frameworks, open-source software tools, and bioinformatics pipelines that enhance the systems biology toolkit. Code availability and reproducibility are expected in computational manuscripts.
Why Publish with JSB?
  • Interdisciplinary Collaboration: JSB fosters synergy between computational modelers and experimental biologists, ensuring theoretical predictions are grounded in empirical evidence.
  • Methodological Rigor: Expert reviewers assess model validity, statistical robustness, experimental design, and the biological relevance of computational predictions.
  • Rapid Publication: Efficient editorial workflows deliver first decisions within weeks and accelerated online publication upon acceptance.
  • Open Access Visibility: Creative Commons licensing (CC BY 4.0) maximizes discoverability, enabling unrestricted reuse in teaching, research, and derivative works.
  • Global Reach: Indexed in leading bioinformatics, molecular biology, and computational science databases, ensuring high citation potential.
  • Innovation Focus: Priority for cutting-edge methods in network inference, single-cell systems biology, spatial omics, and AI-driven data integration.
  • Reproducibility Standards: Adherence to community standards for data sharing, code deposition, and transparent reporting of computational and experimental protocols.
Submission Process

JSB accepts original research articles, methods papers, software tools, reviews, and perspectives. Authors should prepare manuscripts according to the journal's Instructions for Authors, ensuring compliance with reporting guidelines (MIQE, MINSEQE, MIAME, etc.) and ethical standards.

Submissions can be made via the online submission portal or by email. Manuscripts should include:

  • A concise abstract summarizing objectives, methods, key findings, and significance
  • Clear descriptions of computational algorithms, mathematical models, or experimental techniques
  • Data availability statements and links to public repositories (e.g., GEO, PDB, GitHub)
  • Figures illustrating network architectures, pathway maps, simulation results, or experimental validations
  • Supplementary materials including code, datasets, and extended methodologies
Experimental Validation: Computational models are strengthened by experimental validation. JSB encourages integrative studies that combine predictive modeling with laboratory experiments to confirm hypotheses and refine systems-level insights.
Peer Review & Quality Assurance

JSB employs a rigorous peer review process led by editorial board members with expertise in computational biology, molecular systems, bioinformatics, and quantitative methods. Reviewers evaluate:

  • Novelty and significance of the systems-level question
  • Appropriateness of mathematical models or computational approaches
  • Quality and completeness of experimental data
  • Reproducibility of computational analyses
  • Clarity of network visualizations and biological interpretation

Authors receive constructive feedback aimed at strengthening the manuscript's scientific contribution and methodological transparency. Revised manuscripts are re-evaluated to ensure adherence to reviewer recommendations.