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Table 1 Overview of prominent network alignment approaches

From: The post-genomic era of biological network alignment

Network Local or Pairwise or One-to-one or Link to the
aligner global? multiple? many-to-many? software
PathBLAST [93] Local Pairwise Many-to-many http://www.pathblast.org
NetworkBLAST [46] Local Pairwise Many-to-many http://www.cs.tau.ac.il/~bnet/networkblast.htm
MaWISh [48] Local Pairwise Many-to-many http://compbio.case.edu/koyuturk/software/mawish
Graemlin 1.0 [47] Local Multiple Many-to-many http://graemlin.stanford.edu
NetworkBLAST-M [94] Local Multiple Many-to-many http://www.cs.tau.ac.il/~bnet/License-nbm.htm
NetAligner [54] Local Pairwise Many-to-many http://netaligner.irbbarcelona.org
AlignNemo [52] Local Pairwise Many-to-many http://www.sourceforge.net/p/alignnemo/home/Home
AlignMCL [53] Local Pairwise Many-to-many http://sites.google.com/site/alignmcl
IsoRank [55] Global Pairwise One-to-one http://groups.csail.mit.edu/cb/mna
IsoRankN [59] Global Multiple Many-to-many http://groups.csail.mit.edu/cb/mna
GRAAL [38] Global Pairwise One-to-one http://bio-nets.doc.ic.ac.uk/GRAAL_suppl_inf
H-GRAAL [39] Global Pairwise One-to-one http://www.nd.edu/~cone/software_data.html
MI-GRAAL [40] Global Pairwise One-to-one http://bio-nets.doc.ic.ac.uk/MI-GRAAL
GHOST [60] Global Pairwise One-to-one http://www.cs.cmu.edu/~ckingsf/software/ghost
SPINAL [67] Global Pairwise One-to-one http://code.google.com/p/spinal
SMETANA [74] Global Multiple Many-to-many http://www.ece.tamu.edu/~bjyoon/SMETANA
BEAMS [75] Global Multiple Many-to-many http://webprs.khas.edu.tr/~cesim/BEAMS.tar.gz
NetCoffee [76] Global Multiple Many-to-many http://code.google.com/p/netcoffee
FUSE [78] Global Multiple One-to-one Available upon e-mail request until formally published
NETAL [68] Global Pairwise One-to-one http://bioinf.modares.ac.ir/software/netal
GraphM [58] Global Pairwise One-to-one http://cbio.ensmp.fr/~mzaslavskiy/pwp_projects.html
NATALIE 2.0 [64] Global Pairwise One-to-one http://www.mi.fu-berlin.de/w/LiSA/Natalie
GEDEVO-M [77] Global Multiple One-to-one http://gedevo.mpi-inf.mpg.de/multiple-network-alignment
MAGNA [69] Global Pairwise One-to-one http://www.nd.edu/~cone/MAGNA
WAVE [73] Global Pairwise One-to-one Available upon e-mail request until formally published
GREAT [72] Global Pairwise One-to-one Available upon e-mail request until formally published
PINALOG [65] Global Pairwise One-to-one http://www.sbg.bio.ic.ac.uk/~pinalog
  1. In the table, there are eight local and 19 global network aligners. Of the eight local aligners, six are pairwise and two are multiple, and all eight are many-to-many. Of the 19 global aligners, 13 are pairwise and six are multiple, and 15 are one-to-one and four are many-to-many. All global pairwise approaches are one-to-one, while global multiple approaches are either one-to-one or many-to-many