ReviewEmerging topics in life sciences2019
Network modeling of single-cell omics data: challenges, opportunities, and progresses.
Review in Emerging topics in life sciences, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 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.
The trial behind it
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
38 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Guidelines for bioinformatics of single-cell sequencing data analysis in Alzheimer's disease: review, recommendation, implementation and application.Molecular neurodegeneration · 2022Pooled it
- CircRNA-Based Therapeutics: a New Frontier in Neuroinflammation Treatment.Molecular neurobiology · 2025Review
- CONSTRUCTING GENE REGULATORY NETWORK USING CHATTERJEE'S RANK CORRELATION WITH SINGLE-CELL TRANSCRIPTOMIC DATA.bioRxiv : the preprint server for biology · 2025Article
- Single-cell analysis of gene regulatory networks in the mammary glands of P4HA1-knockout mice.PLoS genetics · 2025Article
- Optimized network inference for immune diseased single cells.Frontiers in immunology · 2025Article
- The diversification of methods for studying cell-cell interactions and communication.Nature reviews. Genetics · 2024Review
- Combining LIANA and Tensor-cell2cell to decipher cell-cell communication across multiple samples.Cell reports methods · 2024Article
- Gene Regulatory Networks in Coronary Artery Disease.Current atherosclerosis reports · 2023Review
- Gene regulatory network inference in the era of single-cell multi-omics.Nature reviews. Genetics · 2023Review
- Uses of Multi-Objective Flux Analysis for Optimization of Microbial Production of Secondary Metabolites.Microorganisms · 2023Review
- From time-series transcriptomics to gene regulatory networks: A review on inference methods.PLoS computational biology · 2023Review
- SCING: Inference of robust, interpretable gene regulatory networks from single cell and spatial transcriptomics.iScience · 2023Article
- Neuroinflammation and Brain Disease.BMC neurology · 2023Article
- Joint gene network construction by single-cell RNA sequencing data.Biometrics · 2023Article
- Network-based approaches for modeling disease regulation and progression.Computational and structural biotechnology journal · 2023Review
- Promising immunotherapeutic targets in lung cancer based on single-cell RNA sequencing.Frontiers in immunology · 2023Review
- SRGS: sparse partial least squares-based recursive gene selection for gene regulatory network inference.BMC genomics · 2022Article
- In search of a Drosophila core cellular network with single-cell transcriptome data.G3 (Bethesda, Md.) · 2022Article
- LRLoop: a method to predict feedback loops in cell-cell communication.Bioinformatics (Oxford, England) · 2022Article
- A new gene set identifies senescent cells and predicts senescence-associated pathways across tissues.Nature communications · 2022Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors.
Funding
Abstract
Single-cell multi-omics technologies are rapidly evolving, prompting both methodological advances and biological discoveries at an unprecedented speed. Gene regulatory network modeling has been used as a powerful approach to elucidate the complex molecular interactions underlying biological processes and systems, yet its application in single-cell omics data modeling has been met with unique challenges and opportunities. In this review, we discuss these challenges and opportunities, and offer an overview of the recent development of network modeling approaches designed to capture dynamic networks, within-cell networks, and cell-cell interaction or communication networks. Finally, we outline the remaining gaps in single-cell gene network modeling and the outlooks of the field moving forward.
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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.