ArticleBMC bioinformatics2021
ANAT 3.0: a framework for elucidating functional protein subnetworks using graph-theoretic and machine learning approaches.
Article in BMC bioinformatics, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 7 papers.
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7 citing papers in PubMed.
- Signing protein-protein interaction networks.Bioinformatics (Oxford, England) · 2026Article
- PEANUT: Pathway Enrichment Analysis through Network UTilization.Bioinformatics (Oxford, England) · 2025Article
- scNET: learning context-specific gene and cell embeddings by integrating single-cell gene expression data with protein-protein interactions.Nature methods · 2025Article
- D'or: deep orienter of protein-protein interaction networks.Bioinformatics (Oxford, England) · 2024Article
- SPIDER: constructing cell-type-specific protein-protein interaction networks.Bioinformatics advances · 2024Article
- A network-based method for associating genes with autism spectrum disorder.Frontiers in bioinformatics · 2024Article
- Molecular landscapes of glioblastoma cell lines revealed a group of patients that do not benefit fromFrontiers in neuroscience · 2023Article
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Abstract
backgroundANAT is a Cytoscape plugin for the inference of functional protein-protein interaction networks in yeast and human. It is a flexible graphical tool for scientists to explore and elucidate the protein-protein interaction pathways of a process under study.
resultsHere we present ANAT3.0, which comes with updated PPI network databases of 544,455 (human) and 155,504 (yeast) interactions, and a new machine-learning layer for refined network elucidation. Together they improve network reconstruction to more than twofold increase in the quality of reconstructing known signaling pathways from KEGG.
conclusionsANAT3.0 includes improved network reconstruction algorithms and more comprehensive protein-protein interaction networks than previous versions. ANAT is available for download on the Cytoscape Appstore and at https://www.cs.tau.ac.il/~bnet/ANAT/ .
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