IsoRankN statistics

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Citations per year

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

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

Information


Unique identifier OMICS_04888
Name IsoRankN
Alternative name IsoRank-Nibble
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


No version available

Publication for IsoRank-Nibble

IsoRankN citations

 (17)
call_split

CUFID query: accurate network querying through random walk based network flow estimation

2017
BMC Bioinformatics
PMCID: 5751815
PMID: 29297279
DOI: 10.1186/s12859-017-1899-y
call_split See protocol

[…] deletions. Furthermore, random walk based approaches are typically computationally efficient because the real-world biological networks generally have sparse interactions. For example, IsoRank [] and IsoRankN [] adopt the Google’s PageRank algorithm [] in order to estimate node correspondence scores. It performs a random walk over the Kronecker product between two networks, and utilizes the score […]

library_books

Net2Align: An Algorithm For Pairwise Global Alignment of Biological Networks

2016
Bioinformation
PMCID: 5357568
PMID: 28356678
DOI: 10.6026/97320630012408

[…] match between two networks. It used a heuristic by assigning a score to the aligning pair where 2 nodes are considered a match if their neighbors also match. An advanced version of this algorithm was ISORANKN [], which relies on node specific ranking. Also, NATALIEQ [] was developed which is a web server for topology-based alignment of a PPI with a selected target network from their database.Never […]

library_books

GreedyPlus: An Algorithm for the Alignment of Interface Interaction Networks

2015
Sci Rep
PMCID: 4499810
PMID: 26165520
DOI: 10.1038/srep12074

[…] is weak. Still, global alignment methods have produced network alignments with significant levels of functional similarity between aligned proteins.The IsoRank algorithms – IsoRank and its successor IsoRankN - adopt a global approach to the PPIN alignment problem, formulating a set of mathematical equations and solving them concurrently across the entirety of the two networks, in a manner similar […]

library_books

Fair evaluation of global network aligners

2015
PMCID: 4460690
PMID: 26060505
DOI: 10.1186/s13015-015-0050-8

[…] of these well-established state-of-the-art methods, and thus, our study is of importance for future GNA method development.Also, we note that although we already showed on the example of MI-GRAAL and IsoRankN that combining NCF of one method and AS of another method can lead to a new superior method [, ], testing whether the same holds for MI-GRAAL and GHOST, and in particular identifying the supe […]

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

[…] ed to transfer the knowledge about aging from one species to another between conserved (aligned) PPI networks []. Indeed, it was shown that state-of-the-art network aligners at the time, MI-GRAAL and IsoRankN, as well as their mix-and-match combination, can uncover existing aging-related knowledge with statistically significantly high accuracy, in the sense that the methods align well known aging- […]

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

[…] 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. […]


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IsoRankN institution(s)
Department of Computer Science and Information Engineering, National Taiwan University, Taipei, Taiwan

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