title: GRYFUN: a web application for GO term annotation visualization and analysis in protein sets.
abstract: Functional context for biological sequence is provided in the form of annotations. However, within a group of similar sequences there can be annotation heterogeneity in terms of coverage and specificity. This in turn can introduce issues regarding the interpretation of actual functional similarity and overall functional coherence of such a group. One way to mitigate such issues is through the use of visualization and statistical techniques. Therefore, in order to help interpret this annotation heterogeneity we created a web application that generates Gene Ontology annotation graphs for protein sets and their associated statistics from simple frequencies to enrichment values and Information Content based metrics. The publicly accessible website http://xldb.di.fc.ul.pt/gryfun/ currently accepts lists of UniProt accession numbers in order to create user-defined protein sets for subsequent annotation visualization and statistical assessment. GRYFUN is a freely available web application that allows GO annotation visualization of protein sets and which can be used for annotation coherence and cohesiveness analysis and annotation extension assessments within under-annotated protein sets.
authors: LaSIGE, Departamento de Informática, Faculdade de Ciências, Universidade de Lisboa, Lisboa, Portugal.
authors: Hugo P
authors: HP
authors: Bastos
authors: Departamento de Estatística e Investigação Operacional e Centro de Estatística e Aplicações, Faculdade de Ciências, Universidade de Lisboa, Lisboa, Portugal.
authors: Lisete
authors: L
authors: Sousa
authors: BioFIG - Centre for Biodiversity, Functional and Integrative Genomics, Faculdade de Ciências, Universidade de Lisboa, Lisboa, Portugal.
authors: Luka A
authors: LA
authors: Clarke
authors: LaSIGE, Departamento de Informática, Faculdade de Ciências, Universidade de Lisboa, Lisboa, Portugal.
authors: Francisco M
authors: FM
authors: Couto
mesh_terms: D019295:Computational Biology / Q000379:methods*; D030562:Databases, Protein; D066264:Datasets as Topic; D063990:Gene Ontology; D058977:Molecular Sequence Annotation / Q000379:methods*; D012984:Software; D064878:Web Browser