ArticleBioinformatics (Oxford, England)2026
BLOBFISH: bipartite limited subnetworks from multiple observations using breadth-first search with constrained hops.
Article in Bioinformatics (Oxford, England), 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 2 papers.
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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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Who cites it
2 citing papers in PubMed.
- Gene regulatory network analysis identifies dysregulation of hypoxia pathways as contributing to glioblastoma treatment resistance in females.Biology of sex differences · 2026Article
- Gene regulatory network analysis identifies dysregulation of hypoxia pathways as contributing to glioblastoma multiforme treatment resistance in females.medRxiv : the preprint server for health sciences · 2026Article
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3 authors.
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Abstract
motivationIn analyzing biological network models, such as gene regulatory networks, a common question is how members of a particular set of genes are connected. For example, one might want to explore network relationships between a set of differentially expressed genes, a gene set previously reported in the literature, or elements of one or more pathways. BLOBFISH uses a breadth-first search algorithm adapted to bipartite graphs to identify a compact subnetwork connecting the members of a pre-specified set of genes, providing a regulatory context that can shed light on specific mechanisms involved in a phenotype and its development.
resultsWe demonstrate the use of BLOBFISH to extract connected subnetworks between candidate nodes in and gene regulatory and eQTL networks reflecting tissue specificity using publicly available data from the Genotype Tissue Expression (GTEx) project. AVAILABILITY: Source code is available from GR as part of the netZooR R package (v1.6) (https://github.com/netZoo/netZooR). Replication scripts are available from https://github.com/QuackenbushLab/BLOBFISH_paper_scripts. eQTL networks are available from Zenodo (doi: 10.5281/zenodo.20820178). LIONESS networks are available from GRAND (https://grand.networkmedicine.org/tissues/).
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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.