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PINALOG specifications

Information


Unique identifier OMICS_04893
Name PINALOG
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


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Information


Unique identifier OMICS_04893
Name PINALOG
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for PINALOG

PINALOG citations

 (4)
library_books

An interactomics overview of the human and bovine milk proteome over lactation

2017
Proteome Sci
PMCID: 5267443
PMID: 28149201
DOI: 10.1186/s12953-016-0110-0

[…] the absolute value of the Pearson correlation was applied, in order to get a number of interactions in the co-expression networks that would be comparable to that in the STRING interaction networks. Pinalog [] was used to align different networks to each other, taking into account both sequence similarity between proteins and topological similarity (i.e. similarity of interaction partners for eac […]

library_books

The post genomic era of biological network alignment

2015
EURASIP J Bioinform Syst Biol
PMCID: 5270500
PMID: 28194172
DOI: 10.1186/s13637-015-0022-9

[…] e conservation only or edge conservation only or that treat each conserved edge the same.We note an alternative novel view of the network alignment problem. Namely, unlike the other network aligners, PINALOG [] first detects clusters (dense subnetworks) in the input networks, aligns the clusters between the networks, and finally aligns nodes within the aligned clusters using a seed-and-extend appr […]

library_books

Reverse enGENEering of Regulatory Networks from Big Data: A Roadmap for Biologists

2015
Bioinform Biol Insights
PMCID: 4415676
PMID: 25983554
DOI: 10.4137/BBI.S12467

[…] thologous subgraph to bring to bear on the functional interpretation of the novel network’s subgraph. Various local and global network alignment algorithms have been proposed, including NetworkBLAST, PINALOG, IsoRankN, and the Narayanan–Karp and Hodgkinson–Karp algorithms. […]

library_books

Accurate multiple network alignment through context sensitive random walk

2015
BMC Syst Biol
PMCID: 4331682
PMID: 25707987
DOI: 10.1186/1752-0509-9-S1-S7

[…] ed-and-extend approach. MI-GRAAL [] extends GRAAL by integrating further sources of information (e.g., clustering coefficient or functional similarity) to measure the similarity between two networks. PINALOG [] is another example of pairwise network alignment algorithm, which constructs the initial mapping for protein nodes that form dense subgraphs in the respective networks. This initial mapping […]

Citations

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PINALOG institution(s)
Division of Molecular Biosciences, Faculty of Natural Sciences, Imperial College, London, UK

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