ReviewFrontiers in cell and developmental biology2014
Gene regulatory networks and their applications: understanding biological and medical problems in terms of networks.
Review in Frontiers in cell and developmental biology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 111 papers, 1 of them a synthesis that pooled it.
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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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
111 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Interactions between genes altered during cardiotoxicity and neurotoxicity in zebrafish revealed using induced network modules analysis.Scientific reports · 2023Pooled it
- DataXflowGen for GenAI-driven model generation.Scientific reports · 2026Article
- RegFormer: a single-cell foundation model powered by gene regulatory hierarchies.Nature communications · 2026Article
- N-Gene and T-Gene deregulation networks: a data-driven causal framework for the analysis of gene interventions in cancer.Frontiers in systems biology · 2026Article
- Role of theToxins · 2025Article
- Semi-supervised Bayesian integration of multiple spatial proteomics datasets.PLoS computational biology · 2025Article
- The role of digital twins in P4 medicine: A paradigm for modern healthcare.NPJ digital medicine · 2025Review
- Improved gene regulatory network inference from single cell data with dropout augmentation.PLoS computational biology · 2025Article
- Automated model refinement using perturbation-observation pairs.NPJ systems biology and applications · 2025Article
- Utilizing RNA-seq data in monotone iterative generalized linear model to elevate prior knowledge quality of the circRNA-miRNA-mRNA regulatory axis.BMC bioinformatics · 2025Article
- Gene2role: a role-based gene embedding method for comparative analysis of signed gene regulatory networks.BMC bioinformatics · 2025Article
- The Evolution of Systems Biology and Systems Medicine: From Mechanistic Models to Uncertainty Quantification.Annual review of biomedical engineering · 2025Review
- Selective phase separation of transcription factors is driven by orthogonal molecular grammar.Nature communications · 2025Article
- Inferring gene regulatory networks from time-series scRNA-seq data via GRANGER causal recurrent autoencoders.Briefings in bioinformatics · 2025Article
- HORNET: tools to find genes with causal evidence and their regulatory networks using eQTLs.Bioinformatics advances · 2025Article
- Augusta: From RNA-Seq to gene regulatory networks and Boolean models.Computational and structural biotechnology journal · 2024Article
- From Noise to Knowledge: Diffusion Probabilistic Model-Based Neural Inference of Gene Regulatory Networks.Journal of computational biology : a journal of computational molecular cell biology · 2024Article
- Shrinkage estimation of gene interaction networks in single-cell RNA sequencing data.BMC bioinformatics · 2024Article
- The mathematical exploration for the mechanism of lung adenocarcinoma formation and progression.Briefings in bioinformatics · 2024Article
- Investigating the Impact of Flavonoids onJournal of fungi (Basel, Switzerland) · 2024Article
51 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In recent years gene regulatory networks (GRNs) have attracted a lot of interest and many methods have been introduced for their statistical inference from gene expression data. However, despite their popularity, GRNs are widely misunderstood. For this reason, we provide in this paper a general discussion and perspective of gene regulatory networks. Specifically, we discuss their meaning, the consistency among different network inference methods, ensemble methods, the assessment of GRNs, the estimated number of existing GRNs and their usage in different application domains. Furthermore, we discuss open questions and necessary steps in order to utilize gene regulatory networks in a clinical context and for personalized medicine.
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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.