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32 relations: Biological network inference, BioMart, Biomolecular Object Network Databank, DAVIX, DisGeNET, Encapsulated PostScript, Floyd–Warshall algorithm, Force-directed graph drawing, GeneNetwork, GenMAPP, Genomespace, Gephi, Geworkbench, Graph drawing, Graph Modelling Language, List of filename extensions (A–E), List of systems biology visualization software, MatrixDB, Metascape, National Center for Integrative Biomedical Informatics, NodeXL, OSGi, PathVisio, Pathway analysis, Protein–protein interaction, Social network analysis software, STRING, The Proteolysis Map, TopFIND, Tulip (software), WikiPathways, XGMML.
Biological network inference
Biological network inference is the process of making inferences and predictions about biological networks.
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BioMart
BioMart is a community-driven project to provide a single point of access to distributed research data.
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Biomolecular Object Network Databank
The Biomolecular Object Network Databank is a bioinformatics databank containing information on small molecule and, structures and interactions.
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DAVIX
DAVIX is a Live CD based on Slackware for the purposes of computer security operations.
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DisGeNET
DisGeNET is a discovery platform designed to address a variety of questions concerning the genetic underpinning of human diseases.
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Encapsulated PostScript
Encapsulated PostScript (EPS) is a DSC-conforming PostScript document with additional restrictions which is intended to be usable as a graphics file format.
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Floyd–Warshall algorithm
In computer science, the Floyd–Warshall algorithm is an algorithm for finding shortest paths in a weighted graph with positive or negative edge weights (but with no negative cycles).
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Force-directed graph drawing
Force-directed graph drawing algorithms are a class of algorithms for drawing graphs in an aesthetically-pleasing way.
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GeneNetwork
GeneNetwork is a combined database and open source bioinformatics data analysis software resource for systems genetics.
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GenMAPP
GenMAPP (Gene Map Annotator and Pathway Profiler) is a free, open-source bioinformatics software tool designed to visualize and analyze genomic data in the context of pathways (metabolic, signaling), connecting gene-level datasets to biological processes and disease.
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Genomespace
GenomeSpace is an environment for genomics software tools and applications.
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Gephi
Gephi is an open-source network analysis and visualization software package written in Java on the NetBeans platform.
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Geworkbench
geWorkbench (genomics Workbench) is an open-source software platform for integrated genomic data analysis.
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Graph drawing
Graph drawing is an area of mathematics and computer science combining methods from geometric graph theory and information visualization to derive two-dimensional depictions of graphs arising from applications such as social network analysis, cartography, linguistics, and bioinformatics.
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Graph Modelling Language
Graph Modeling Language (GML) is a hierarchical ASCII-based file format for describing graphs.
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List of filename extensions (A–E)
This alphabetical list of filename extensions contains standard extensions associated with computer files.
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List of systems biology visualization software
Category:Bioinformatics software Category:Systems biology Category:Data visualization software.
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MatrixDB
MatrixDB is a biological database focused on molecular interactions between extracellular proteins and polysaccharides.
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Metascape
Metascape is a free gene annotation and analysis resource that helps biologists make sense of one or multiple gene lists.
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National Center for Integrative Biomedical Informatics
The National Center for Integrative Biomedical Informatics (NCIBI) is one of seven National Centers for Biomedical Computing funded by the National Institutes of Health's (NIH) Roadmap for Medical Research.
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NodeXL
NodeXL Basic is a free and open-source network analysis and visualization software package for Microsoft Excel 2007/2010/2013/2016.
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OSGi
The OSGi Alliance, formerly known as the Open Services Gateway initiative, is an open standards organization founded in March 1999 that originally specified and continues to maintain the OSGi standard.
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PathVisio
PathVisio is a free open-source pathway analysis and drawing software.
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Pathway analysis
In bioinformatics research, pathway analysis software is used to identify related proteins within a pathway or building pathway de novo from the proteins of interest.
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Protein–protein interaction
Protein–protein interactions (PPIs) are the physical contacts of high specificity established between two or more protein molecules as a result of biochemical events steered by electrostatic forces including the hydrophobic effect.
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Social network analysis software
Social network analysis software (SNA software) is software which facilitates quantitative or qualitative analysis of social networks, by describing features of a network either through numerical or visual representation.
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STRING
In molecular biology, STRING (Search Tool for the Retrieval of Interacting Genes/Proteins) is a biological database and web resource of known and predicted protein–protein interactions.
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The Proteolysis Map
The Proteolysis MAP (PMAP) is an integrated web resource focused on proteases.
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TopFIND
TopFIND is the Termini oriented protein Function Inferred Database (TopFIND) is an integrated knowledgebase focused on protein termini, their formation by proteases and functional implications.
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Tulip (software)
Tulip is an information visualization framework dedicated to the analysis and visualization of relational data.
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WikiPathways
WikiPathways is a community resource for contributing and maintaining content dedicated to biological pathways.
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XGMML
XGMML (the eXtensible Graph Markup and '''M'''odeling '''L'''anguage) is an XML application based on GML which is used for graph description.
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References
[1] https://en.wikipedia.org/wiki/Cytoscape
