• IsoRankN

  • Referenced in 10 articles [sw08325]
  • describe IsoRankN (IsoRank-Nibble), a global multiple-network alignment tool based on spectral clustering ... scores. IsoRankN outperforms existing algorithms for global network alignment in coverage and consistency on multiple...
  • IsoRank

  • Referenced in 11 articles [sw08324]
  • algorithm for global alignment of multiple protein-protein inter- action (PPI) networks. The algorithm aims ... field has focused on local network alignment. The intuition behind our algorithm is that ... input networks and then using k-partite matching to extract the final global alignment across ... compute the first known global alignment of PPI networks from five species: yeast, fly, worm...
  • GHOST

  • Referenced in 4 articles [sw08322]
  • GHOOST: Global Network Alignment using Multiscale Spectral Signatures. GHOST is a software package for global...
  • HubAlign

  • Referenced in 3 articles [sw34150]
  • efficient method for global alignment of protein–protein interaction networks. Motivation: High-throughput experimental techniques ... methods have been developed for global PPI network alignment, but it still remains challenging ... Results: This paper presents a novel global network alignment algorithm, denoted as HubAlign, that makes ... protein from the global network topology information. Then HubAlign aligns topologically important proteins first...
  • NETAL

  • Referenced in 3 articles [sw34152]
  • graph-based method for global alignment of protein–protein interaction networks. Results: We present ... novel algorithm for the global alignment of protein–protein interaction networks. It uses a greedy ... input networks to find the best global network alignment. NETAL outperforms other global alignment methods ... first server for global alignment of protein–protein interaction networks. Availability: Binaries supported on linux...
  • Natalie

  • Referenced in 3 articles [sw08323]
  • natalie is a tool for pairwise global network alignment [1]. The current version is capable...
  • L-GRAAL

  • Referenced in 2 articles [sw34161]
  • aligner. Results: We introduce a novel global network alignment tool, Lagrangian GRAphlet-based ALigner...
  • MAGNA++

  • Referenced in 2 articles [sw34155]
  • MAGNA++: Maximizing Accuracy in Global Network Alignment via both node and edge conservation. Results: MAGNA...
  • MI-GRAAL

  • Referenced in 3 articles [sw08318]
  • Integrative network alignment reveals large regions of global network similarity in yeast and human. Motivation ... biological network data with much more yet to come. Analogous to sequence alignment, efficient ... alignments. MI-GRAAL exposes the largest functional, connected regions of protein–protein interaction (PPI) network ... continuous regions of global network similarity. We apply MI-GRAAL’s alignments to predict functions...
  • C-GRAAL

  • Referenced in 3 articles [sw08317]
  • GRAAL: Common-neighbors-based global GRAph ALignment of biological networks. Networks are an invaluable framework ... expected that comparison and alignment of biological networks will have a similar impact ... novel pairwise global alignment algorithm called Common-neighbors based GRAph ALigner (C-GRAAL) that uses ... maximizing the number of aligned edges between two networks and is based solely on network...
  • PrimAlign

  • Referenced in 1 article [sw34148]
  • Results: We propose a novel pairwise global network alignment algorithm, called PrimAlign, which is modeled...
  • SPINAL

  • Referenced in 5 articles [sw08319]
  • problem of globally aligning a pair of PPI networks. Our algorithm proceeds in two phases...
  • NetCoffee

  • Referenced in 1 article [sw34151]
  • accurate global alignment approach to identify functionally conserved proteins in multiple networks. Motivation: Owing ... Network alignments provide a systematic way to solve this problem. However, most existing alignment tools ... demand for faster and more efficient alignment tools is growing. Results: We present a fast ... multiple protein–protein interaction networks. NetCoffee searches for a global alignment by maximizing a target...
  • IGLOO

  • Referenced in 1 article [sw14829]
  • IGLOO: Integrating global and local biological network alignment. Biological network alignment (NA) aims to find ... molecular networks of different species. NA can be either local (LNA) or global ... high functional but low topological alignment quality, while GNA has high topological but low functional...
  • DeepContext

  • Referenced in 1 article [sw32556]
  • image depicting a 3D scene, our network aligns the observed scene with a predefined ... convolutional neural network, capturing both global scene and local object information simultaneously. To create training...
  • MetaPSICOV

  • Referenced in 1 article [sw17012]
  • local and global quality of the input multiple sequence alignment. Finally ... ability to accurately predict the long range network of hydrogen bonds, including correctly assigning...
  • ANSYS

  • Referenced in 662 articles [sw00044]
  • ANSYS offers a comprehensive software suite that spans...
  • CGAL

  • Referenced in 360 articles [sw00118]
  • The goal of the CGAL Open Source Project...
  • Coq

  • Referenced in 1807 articles [sw00161]
  • Coq is a formal proof management system. It...
  • CSDP

  • Referenced in 200 articles [sw00169]
  • CSDP, A C Library for Semidefinite Programming. This...