CentiBiN statistics

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Citations per year

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

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

Information


Unique identifier OMICS_12247
Name CentiBiN
Alternative name Centralities in Biological Networks
Software type Application/Script
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Medium
Version 1.4.2
Stability Stable
Maintained Yes

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Versioning


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Documentation


Maintainer


  • person_outline Dirk Koschützki

Information


Unique identifier OMICS_12247
Name CentiBiN
Alternative name Centralities in Biological Networks
Interface Web user interface
Restrictions to use None
Programming languages Java
Computer skills Basic
Stability Stable
Maintained Yes

Documentation


Maintainer


  • person_outline Dirk Koschützki

Publication for Centralities in Biological Networks

CentiBiN citations

 (14)
library_books

Identification of oral cancer related candidate genes by integrating protein protein interactions, gene ontology, pathway analysis and immunohistochemistry

2017
Sci Rep
PMCID: 5449392
PMID: 28559546
DOI: 10.1038/s41598-017-02522-5

[…] z. degree, closeness, radiality, shortest-path betweenness, current-flow betweenness, current-flow closeness, centroid, page rank, vulnerability, stress and eigenvector were calculated using software Centibin, Cytoscape 3.2.1, and in-house code,. Detailed information about these centralities is given in the supplementary data.The genes were ranked according to their importance in the network based […]

library_books

Network based analysis of differentially expressed genes in cerebrospinal fluid (CSF) and blood reveals new candidate genes for multiple sclerosis

2016
PeerJ
PMCID: 5183126
PMID: 28028462
DOI: 10.7717/peerj.2775

[…] es and direct interactions among them. The subnetworks of QQPPI were constructed and visualized by Cytoscape software (). Centrality parameters of QQPPI networks were analyzed using the Cytoscape and CentiBin softwares (). The following parameters were calculated to determine biologically significant nodes (). Degree: the number of links to a given node. The Betweenness centrality of node v is cal […]

library_books

Application of centrality measures in the identification of critical genes in diabetes mellitus

2015
Bioinformation
PMCID: 4369684
PMID: 25848169
DOI: 10.6026/97320630011090

[…] xploratory process []. To support such analysis and due to the complexity of both biological networks and centrality calculations, a tool is needed to facilitate these investigations. Here we present CentiBin, an application for the calculation and visualization of centralities for biological networks.The human protein interaction data was obtained from Human Protein Reference Database (HPRD). The […]

library_books

Genome Scale Modeling in Systems Biology: Algorithms and Resources

2014
Curr Genomics
PMCID: 4009841
PMID: 24822031
DOI: 10.2174/1389202915666140319002221

[…] n (SBGN) Maps, an emerging standard for graphical representations of biochemical and cellular processes studied in systems biology. CentiLib: computation and investigation of weighted and unweighted centralities in biological networks. GLIEP (Glyph-based Link Exploration of Pathways): navigation and exploration process of interconnected pathway visualization as well as providing insight into the […]

library_books

Network Analysis of Neurodegenerative Disease Highlights a Role of Toll Like Receptor Signaling

2014
Biomed Res Int
PMCID: 3914352
PMID: 24551850
DOI: 10.1155/2014/686505

[…] f paths with length l 1 ( = 1), l 2 ( = 2),…, l L ( = L), correspondingly; L: the maximum length corresponding to the furthest path found.The network analysis was implemented in CoSBiLab-Graph [] and Centralities in Biological Networks []. The network mining and text mining were performed by Python script []. The network visualization was performed by the software NAViGaTOR (Network Analysis, Visu […]

library_books

Candidate Gene Identification for Systemic Lupus Erythematosus Using Network Centrality Measures and Gene Ontology

2013
PLoS One
PMCID: 3847089
PMID: 24312583
DOI: 10.1371/journal.pone.0081766

[…] ing direction is from B to A).For the human immunome network, the ten centrality measures were calculated to rank the potential of the individual proteins in the network. Since the HISN is sparse the CentiBiN tool was able to calculate only the in-degree, out-degree, Katz status and PageRank measures. After pooling the top 50 ranking genes, we have obtained 87 genes (SET A) which are highly essent […]


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CentiBiN institution(s)
Department of Molecular Genetics, Leibniz Institute of Plant Genetics and Crop Plant Research, Gatersleben, Germany
CentiBiN funding source(s)
The German Ministry of Education and Research (BMBF) supported part of this work under grants 0312706A and 0313115.

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