MNAligner statistics

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Citations per year

Number of citations per year for the bioinformatics software tool MNAligner
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Tool usage distribution map

This map represents all the scientific publications referring to MNAligner per scientific context
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MNAligner specifications

Information


Unique identifier OMICS_24038
Name MNAligner
Alternative name Molecular Network Aligner
Software type Application/Script
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages MATLAB
Computer skills Advanced
Version 1.0
Stability Beta
Maintained Yes

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Maintainers


  • person_outline Luonan Chen
  • person_outline Xiang-Sun Zhang

Publication for Molecular Network Aligner

MNAligner citations

 (6)
library_books

Aligning Metabolic Pathways Exploiting Binary Relation of Reactions

2016
PLoS One
PMCID: 5148114
PMID: 27936108
DOI: 10.1371/journal.pone.0168044

[…] ge matching scores in the similarity objective function. Then, the alignment of pathways is solved by maximizing the similarity objective function between two pathways over all feasible combinations. MNAligner [] is one example of such methods. MNAligner uses the integer quadratic programming to formulate the alignment of two pathways and find conserved patterns between pathways. To align both two […]

library_books

Pathway mapping and development of disease specific biomarkers: protein based network biomarkers

2015
J Cell Mol Med
PMCID: 4407592
PMID: 25560835
DOI: 10.1111/jcmm.12447

[…] ere developed to integrate selected genes or proteins into the knowledge-based networks via the combination of genomics, proteomics and bioinformatics, such as GRNInfer , MDCinfer , TRNInfer , Samo , MNAligner , PTG , PRNA , NOA , differential dependency network (DDN) , WGCNA , SurvNet or DiME , each of them has its own advantages and strength on basis of scientific needs and investigative goals, […]

library_books

Role of clinical bioinformatics in the development of network based Biomarkers

2011
J Clin Bioinforma
PMCID: 3221619
PMID: 22024468
DOI: 10.1186/2043-9113-1-28

[…] from high-throughput data (nTRNInfer), inferring protein-protein interactions by parsimony principle (nInferPPI), inferring protein-protein interactions based on multi-domain cooperation (nMDCinfer), molecular network aligner (nMNAligner), detecting drug targets in metabolic networks by integer linear programming (nMetaILP), protein structure alignment tool based on multiple objective optimization […]

library_books

Effective Identification of Conserved Pathways in Biological Networks Using Hidden Markov Models

2009
PLoS One
PMCID: 2782142
PMID: 19997609
DOI: 10.1371/journal.pone.0008070

[…] om the tutorial files in the PathBLAST plugin of software Cytopscape (version 1.1, http://www.cytoscape.org/plugins1.php) and they were used for the validation of a network alignment algorithm called MNAligner . […]

library_books

Domain oriented edge based alignment of protein interaction networks

2009
Bioinformatics
PMCID: 2687956
PMID: 19477994
DOI: 10.1093/bioinformatics/btp202

[…] extract conserved complexes. MaWISh (Koyutürk et al., ) merged pairwise interaction networks into a single alignment graph and treated network alignment as a maximum weight induced subgraph problem. MNAligner (Li et al., ) described an integer quadratic programming (IQP) model to identify conserved substructures.Recently, several network alignment algorithms have been developed that can align mor […]

library_books

Biomolecular network querying: a promising approach in systems biology

2008
BMC Syst Biol
PMCID: 2245906
PMID: 18205908
DOI: 10.1186/1752-0509-2-5

[…] ses in these species. Although there is a problem of reliability due to noise, the preliminary functional differences and underlying principles are worthy of further investigation.A second example is MNAligner [], developed by our group, which is an alignment tool for general biomolecular networks that combines both molecular similarity and topological similarity. This method can detect conserved […]


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MNAligner institution(s)
Beijing Wuzi University, Beijing, China; Academy of Mathematics and Systems Science, Chinese Academy of Sciences, Beijing, China; Graduate University of Chinese Academy of Sciences, Beijing, China; Institute of Systems Biology, Shanghai University, Shanghai, China; Osaka Sangyo University, Osaka, Japan; ERATO Aihara Complexity Modelling Project, JST, Tokyo, Japan; Institute of Industrial Science, The University of Tokyo, Tokyo, Japan
MNAligner funding source(s)
Supported by Important Research Direction Project of CAS ‘Some Important Problems in Bioinformatics’, National Natural Science Foundation of China under Grant No.10631070, 60503004, the National Basic Research Program (973 Program) under Grant No. 2006CB503910, K.G.Wang Education Foundation Hong Kong and by JSPS-NSFC Collaboration Project.

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