Journal of Systems Biology

Journal of Systems Biology

Journal of Systems Biology – Aim And Scope

Open Access & Peer-Reviewed

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Aims & Scope

Journal of Systems Biology (JSB) publishes research on the molecular mechanisms, computational modeling, and network-level understanding of biological systems through integrative omics, bioinformatics, and quantitative analysis.
Molecular Networks Computational Modeling Omics Integration Gene Regulation Protein Interactions
We do NOT consider: Clinical trials, patient outcomes, medical device development, or clinical diagnostic studies without fundamental molecular insights.

Core Research Domains

Molecular Networks & Interactions

  • Gene regulatory networks and transcriptional control
  • Protein-protein interaction networks
  • Metabolic pathway analysis and flux modeling
  • Signal transduction cascades and cellular signaling
  • Post-translational modification networks
  • RNA regulatory networks and non-coding RNA function
Typical fit: Network-level analysis of transcription factor binding dynamics during cellular differentiation, integrating ChIP-seq, RNA-seq, and proteomics data.

Computational & Quantitative Biology

  • Mathematical modeling of biological systems
  • Network topology analysis and graph theory applications
  • Systems dynamics and differential equation modeling
  • Stochastic modeling of molecular processes
  • Algorithm development for biological data analysis
  • Machine learning applications in omics data integration
Typical fit: Development of novel algorithms for predicting protein complex formation from multi-omics datasets using deep learning architectures.

Omics Technologies & Integration

  • Genomics and functional genomics approaches
  • Transcriptomics and gene expression profiling
  • Proteomics and protein expression analysis
  • Metabolomics and metabolic profiling
  • Epigenomics and chromatin state analysis
  • Multi-omics data integration and systems-level interpretation
Typical fit: Integrative analysis of genomic, transcriptomic, and proteomic data to identify master regulators of metabolic reprogramming in cellular stress responses.

Structural & Molecular Biology

  • Protein structure-function relationships
  • Molecular dynamics simulations
  • Structural biology and macromolecular assemblies
  • Computational chemistry and molecular modeling
  • Biophysical chemistry of biomolecular interactions
  • DNA-protein interactions and genome architecture
Typical fit: Molecular dynamics simulations revealing allosteric mechanisms in enzyme regulation, validated by structural biology and biochemical assays.

Secondary Focus Areas

Synthetic Biology & Bioengineering

Design and construction of artificial biological systems, genetic circuits, and engineered molecular networks for understanding fundamental biological principles.

Evolutionary Systems Biology

Network evolution, adaptive dynamics, molecular evolution of regulatory systems, and phylogenetic analysis of biological networks.

Bioinformatics Tools & Databases

Development of computational tools, databases, and software platforms for systems-level analysis of biological data and network visualization.

Microbial Systems Biology

Systems-level analysis of microbial metabolism, gene regulation, and cellular networks in bacteria, archaea, and fungi.

Ecological Network Modeling

Mathematical modeling of ecological interactions, population dynamics, and ecosystem-level network analysis with molecular underpinnings.

Biotechnology Applications

Systems biology approaches to metabolic engineering, biosensor development, and optimization of biological production systems.

Emerging Research Frontiers

Selective Consideration

Note: Submissions in these areas undergo additional editorial review to ensure strong systems biology focus and molecular-level insights.
Artificial intelligence for molecular pattern recognition
Single-cell systems biology and heterogeneity analysis
Spatial omics and tissue-level network mapping
Quantum biology and quantum effects in biological systems
Biomarker discovery through network analysis
Systems pharmacology and drug target identification

Explicitly Out of Scope

We Do Not Consider

Clinical Medicine & Patient Care

Clinical trials, patient outcomes, treatment efficacy studies, clinical diagnostics, or medical device performance without fundamental molecular mechanisms.

Applied Medical Imaging

Medical imaging techniques, diagnostic imaging, or clinical radiology studies unless directly coupled with molecular-level systems analysis.

Engineering Systems (Non-Biological)

Power systems engineering, robotics research, or general data engineering without direct biological systems application.

Pure Medicinal Chemistry

Drug synthesis, pharmaceutical formulation, or medicinal chemistry without systems-level biological network analysis.

Descriptive Clinical Studies

Observational clinical studies, epidemiological surveys, or health outcomes research without molecular systems insights.

Article Types & Priorities

Priority 1

Fast-Track Review

Priority 2

Standard Review

Rarely Considered

By Invitation Only

Editorial Standards & Requirements

Reporting Guidelines

  • ARRIVE for animal studies
  • MIAME for microarray data
  • MIQE for qPCR experiments
  • STROBE for observational studies
  • PRISMA for systematic reviews

Data Availability

  • Raw data deposition in public repositories
  • Code and algorithms shared via GitHub/Zenodo
  • Proteomics data in PRIDE/ProteomeXchange
  • Genomics data in GEO/ArrayExpress/SRA
  • Metabolomics data in MetaboLights

Ethics & Compliance

  • IRB/Ethics committee approval for human samples
  • IACUC approval for animal research
  • Informed consent documentation
  • Biosafety and biosecurity compliance
  • Conflict of interest disclosure

Preprint Policy

  • Preprints on bioRxiv/arXiv accepted
  • Must be disclosed during submission
  • No impact on editorial consideration
  • Version control maintained
  • DOI linking to final publication
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Decision Metrics

21
Days to First Decision
32%
Acceptance Rate
45
Days to Publication
Open
Access Model

Ready to Submit?

If your research focuses on molecular mechanisms, computational modeling, or systems-level understanding of biological networks, we invite you to submit your manuscript.

Submit Your Manuscript