DyNet statistics

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Citations per year

Number of citations per year for the bioinformatics software tool DyNet

Tool usage distribution map

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


Unique identifier OMICS_11674
Name DyNet
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Medium
Version 0.9.1
Stability Stable
Maintained Yes




No version available


  • person_outline David J. Lynn

Publication for DyNet

DyNet citations


Time resolved transcriptome and proteome landscape of human regulatory T cell (Treg) differentiation reveals novel regulators of FOXP3

BMC Biol
PMCID: 5937035
PMID: 29730990
DOI: 10.1186/s12915-018-0518-3

[…] nally obtained from all bootstrap networks previously generated. Early and Late consensus networks were imported into Cytoscape 3.4 (http://www.cytoscape.org/cy3.html) and they were compared with the DyNet algorithm [] in order to identify the most rewired nodes, by ranking the nodes with a decreasing Dn score. To select a robust target core subnetwork of iTreg signature genes in the vicinity of F […]


Creating, generating and comparing random network models with NetworkRandomizer

PMCID: 5686481
PMID: 29188012
DOI: 10.5256/f1000research.9906.r17046

[…] is is achieved by comparing the networks under investigation, with some randomly generated networks.It is important to note that some apps that allow performing network comparison exist. For instance DyNet , GASOLINE , NetMatch* , and RandomNetworks . RandomNetworks has a lot of similarities with our app but is no longer maintained and it works only with Cytoscape 2.x which makes it useless with t […]


Little Cigars are More Toxic than Cigarettes and Uniquely Change the Airway Gene and Protein Expression

Sci Rep
PMCID: 5406835
PMID: 28447619
DOI: 10.1038/srep46239

[…] ld changes. The Reactome analysis of proteins was performed using the STRING algorithm. Overlay analysis of the two resulting reactome networks was prepared in the software Cytoscape V3.4.0 using the DyNet application. […]


Overexpression of blueberry FLOWERING LOCUS T is associated with changes in the expression of phytohormone related genes in blueberry plants

PMCID: 5080838
PMID: 27818778
DOI: 10.1038/hortres.2016.53

[…] nalyses were conducted using CLC Sequence Viewer 7. GO enrichment analysis was conducted from the homepage of the GO Consortium website. Interactive graphs of selected genes were made using BiNGO and DyNet in Cytoscape 3.4.0 (http://www.cytoscape.org). […]

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DyNet institution(s)
EMBL Australia Biomedical Informatics Group, Infection & Immunity Theme, South Australian Medical and Health Research Institute, North Terrace, Adelaide, SA, Australia; School of Medicine, Flinders University, Bedford Park, SA, Australia
DyNet funding source(s)
The European Union Seventh Framework Programme (FP7/2007-2013) PRIMES project under grant agreement number FP7-HEALTH-2011-278568; EMBL Australia

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