ArticleTrends in biotechnology2014
Signaling hypergraphs.
Article in Trends in biotechnology, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 12 papers.
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
12 citing papers in PubMed.
- Comparing the ability of embedding methods on metabolic hypergraphs for capturing taxonomy-based features.Algorithms for molecular biology : AMB · 2026Article
- Petri graph neural networks advance learning higher order multimodal complex interactions in graph structured data.Scientific reports · 2025Article
- A Causal Regulation Modeling Algorithm for Temporal Events with Application toInternational journal of molecular sciences · 2024Article
- Current and future directions in network biology.Bioinformatics advances · 2024Article
- Hypergraph geometry reflects higher-order dynamics in protein interaction networks.Scientific reports · 2022Article
- Computing optimal factories in metabolic networks with negative regulation.Bioinformatics (Oxford, England) · 2022Article
- Heuristic shortest hyperpaths in cell signaling hypergraphs.Algorithms for molecular biology : AMB · 2022Article
- Geometry and symmetry in biochemical reaction systems.Theory in biosciences = Theorie in den Biowissenschaften · 2021Article
- Integrated querying and version control of context-specific biological networks.Database : the journal of biological databases and curation · 2020Article
- Hypergraph-based connectivity measures for signaling pathway topologies.PLoS computational biology · 2019Article
- Xtalk: a path-based approach for identifying crosstalk between signaling pathways.Bioinformatics (Oxford, England) · 2016Article
- Pathway Analysis with Signaling Hypergraphs.IEEE/ACM transactions on computational biology and bioinformaticsArticle
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors.
Funding
Abstract
Signaling pathways function as the information-passing mechanisms of cells. A number of databases with extensive manual curation represent the current knowledge base for signaling pathways. These databases motivate the development of computational approaches for prediction and analysis. Such methods require an accurate and computable representation of signaling pathways. Pathways are often described as sets of proteins or as pairwise interactions between proteins. However, many signaling mechanisms cannot be described using these representations. In this opinion, we highlight a representation of signaling pathways that is underutilized: the hypergraph. We demonstrate the usefulness of hypergraphs in this context and discuss challenges and opportunities for the scientific community.
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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.