Search Results for author: Wayne B. Hayes

Found 5 papers, 4 papers with code

BLANT: Basic Local Alignment of Network Topology, Part 2: Topology-only Extension Beyond Graphlet Seeds

no code implementations10 Jul 2022 Tingyin Ding, Utsav Jain, Wayne B. Hayes

While topology-driven local network alignment has a wide variety of potential applications outside bioinformatics, here we focus on the alignment of Protein-Protein Interaction (PPI) networks.

SANA: Cross-Species Prediction of Gene Ontology GO Annotations via Topological Network Alignment

1 code implementation26 Apr 2022 Siyue Wang, Giles R. S. Atkinson, Wayne B. Hayes

We argue that this failure of topology alone is due to the sparsity and incompleteness of the PPI network data of almost all species, which provides the network topology with a small signal-to-noise ratio that is effectively swamped when sequence information is added to the mix.

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Exact $p$-values for global network alignments via combinatorial analysis of shared GO terms (Subtitle: REFANGO: Rigorous Evaluation of Functional Alignments of Networks using Gene Ontology)

1 code implementation9 Oct 2020 Wayne B. Hayes

Network alignment aims to uncover topologically similar regions in the protein-protein interaction (PPI) networks of two or more species under the assumption that topologically similar regions tend to perform similar functions.

An introductory guide to aligning networks using SANA, the Simulated Annealing Network Aligner

2 code implementations22 Nov 2019 Wayne B. Hayes

SANA is one of many algorithms proposed for the arena of biological network alignment.

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