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Biological network analysis software tools | Biological pathway

Networks are becoming increasingly important to understand the relationships between genotype and phenotype, specifically in the context of disease. Consequently, the demand for efficient network visualization and analysis tools, which can interoperate with modern data analysis…

Biological network analysis steps

Most recent bioinformatics tools

VIENNA-RNL
Desktop

VIENNA-RNL Vienna Reaction Network Library

Supplies a set of data structures for chemical reactions and their networks.…

Supplies a set of data structures for chemical reactions and their networks. VIENNA-RNL is a library for suited for being used with users’ personal programs in Perl or C languages and can also…

GGL
Desktop

GGL Graph Grammar Library

Offers a framework for formulating and applying graph grammars. GGL proposes a…

Offers a framework for formulating and applying graph grammars. GGL proposes a modular graph rewrite system, based on a Double Push Out (DPO) approach, that contains a specific functionality to…

CYCDECO
Desktop

CYCDECO

Allows users to determine both cycle and u-path bases. CYCDECO is a standalone…

Allows users to determine both cycle and u-path bases. CYCDECO is a standalone software that uses undirected unweighted graphs for calculating features such as a minimum cycle bases and the set of…

COMICS
Web

COMICS

Allows combined integration and visualization of molecular expression data in…

Allows combined integration and visualization of molecular expression data in some vertebrate model organisms. COMICS employs pre-existing anatomical ontologies to map arbitrary omics data across…

Most popular analytical software and databases

CMGRN
Web

CMGRN Constructing Multilevel Gene Regulatory Networks

An integrative web server to unravel hierarchical interactive networks at…

An integrative web server to unravel hierarchical interactive networks at different regulatory levels. The developed method used the Bayesian network modeling to infer causal interrelationships among…

GPS-Prot
Web

GPS-Prot

A software tool that allows users to easily create an integrated human protein…

A software tool that allows users to easily create an integrated human protein network, or HIV-host networks. A major advantage of this platform compared to other visualization tools is its web-based…

ProteinLounge
Web

ProteinLounge

Develops many interactive web-based databases and software to help the…

Develops many interactive web-based databases and software to help the life-scientists understand the complexity of systems biology. Systems biology efforts focus on understanding cellular networks,…

NETAL
Desktop

NETAL Network Alignment

An algorithm for the global alignment of protein-protein interaction networks.…

An algorithm for the global alignment of protein-protein interaction networks. NETAL uses a greedy method, based on the alignment scoring matrix, which is derived from both biological and topological…

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