ArticlePLoS computational biology2017
Network propagation in the cytoscape cyberinfrastructure.
Article in PLoS computational biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 47 papers, 1 of them a synthesis that pooled it.
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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
47 citing papers in PubMed, 1 synthesis or guideline pooled it.
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- Acute Shear Stress Induces TWIST-Mediated EndMT in Venous Endothelial Cells and Human Long Saphenous Veins.Cells · 2025Article
- Global siRNA screen identifies human host factors critical for SARS-CoV-2 replication and late stages of infection.PLoS biology · 2025Article
- Bridging Ethnobotanical Knowledge and Multi-Omics Approaches for Plant-Derived Natural Product Discovery.Metabolites · 2025Review
- Prediction of new candidate proteins and analysis of sub-modules and protein hubs associated with seed development in rice (Oryza sativa) using an ensemble network-based systems biology approach.BMC plant biology · 2025Article
- Network-based transfer of pan-cancer immunotherapy responses to guide breast cancer prognosis.NPJ systems biology and applications · 2025Article
- Multi-Omics Analysis Identified Drug Repurposing Targets for Chronic Obstructive Pulmonary Disease.International journal of molecular sciences · 2024Article
- Herb-CMap: a multimodal fusion framework for deciphering the mechanisms of action in traditional Chinese medicine using Suhuang antitussive capsule as a case study.Briefings in bioinformatics · 2024Article
- Immune Gene Networks from Lung Cancer Patients Treated with Immune Checkpoint Inhibitors.Biomedicines · 2024Article
- Transcriptomics of temperature-sensitive R gene-mediated resistance identifies a WAKL10 protein interaction network.Scientific reports · 2024Article
- On propagation in networks, promising models beyond network diffusion to describe degenerative brain diseases and traumatic brain injuries.Frontiers in pharmacology · 2024Article
- Curation of causal interactions mediated by genes associated with autism accelerates the understanding of gene-phenotype relationships underlying neurodevelopmental disorders.Molecular psychiatry · 2024Article
- Network modeling suggests HIV infection phenocopies PI3K-AKT pathway mutations to enhance HPV-associated cervical cancer.Molecular omics · 2023Article
- XGDAG: explainable gene-disease associations via graph neural networks.Bioinformatics (Oxford, England) · 2023Article
- Metabolic profiles of lung adenocarcinoma via peripheral blood and diagnostic model construction.Scientific reports · 2023Article
- Integrative Analysis of the Ethanol Tolerance ofInternational journal of molecular sciences · 2023Article
- NIAPU: network-informed adaptive positive-unlabeled learning for disease gene identification.Bioinformatics (Oxford, England) · 2023Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
Network propagation is an important and widely used algorithm in systems biology, with applications in protein function prediction, disease gene prioritization, and patient stratification. However, up to this point it has required significant expertise to run. Here we extend the popular network analysis program Cytoscape to perform network propagation as an integrated function. Such integration greatly increases the access to network propagation by putting it in the hands of biologists and linking it to the many other types of network analysis and visualization available through Cytoscape. We demonstrate the power and utility of the algorithm by identifying mutations conferring resistance to Vemurafenib.
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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.