Dataset Information

PANADA: protein association network annotation, determination and analysis.

ABSTRACT: Increasingly large numbers of proteins require methods for functional annotation. This is typically based on pairwise inference from the homology of either protein sequence or structure. Recently, similarity networks have been presented to leverage both the ability to visualize relationships between proteins and assess the transferability of functional inference. Here we present PANADA, a novel toolkit for the visualization and analysis of protein similarity networks in Cytoscape. Networks can be constructed based on pairwise sequence or structural alignments either on a set of proteins or, alternatively, by database search from a single sequence. The Panada web server, executable for download and examples and extensive help files are available at URL: http://protein.bio.unipd.it/panada/.

SUBMITTER: Martin AJ

PROVIDER: S-EPMC3827049 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature

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PANADA: protein association network annotation, determination and analysis.

Martin Alberto J M AJ Walsh Ian I Domenico Tomás Di TD Mičetić Ivan I Tosatto Silvio C E SC

PloS one 20131112 11

Increasingly large numbers of proteins require methods for functional annotation. This is typically based on pairwise inference from the homology of either protein sequence or structure. Recently, similarity networks have been presented to leverage both the ability to visualize relationships between proteins and assess the transferability of functional inference. Here we present PANADA, a novel toolkit for the visualization and analysis of protein similarity networks in Cytoscape. Networks can b ...[more]

PMID: 24265686

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Dataset Information

PANADA: protein association network annotation, determination and analysis.

Publications

PANADA: protein association network annotation, determination and analysis.

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