@ARTICLE{10.1371/journal.pone.0119631,
  author = {Bastos, Hugo P. AND Sousa, Lisete AND Clarke, Luka A. AND Couto,
	Francisco M.},
  title = {GRYFUN: A Web Application for GO Term Annotation Visualization and
	Analysis in Protein Sets},
  journal = {PLoS ONE},
  year = {2015},
  volume = {10},
  pages = {e0119631},
  number = {3},
  month = {03},
  abstract = {<p>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 <ext-link xmlns:xlink="http://www.w3.org/1999/xlink" ext-link-type="uri"
	xlink:href="http://xldb.di.fc.ul.pt/gryfun/" xlink:type="simple">http://xldb.di.fc.ul.pt/gryfun/</ext-link>
	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.</p>},
  doi = {10.1371/journal.pone.0119631},
  file = {:Bastosetal2015journal.pone.0119631.pdf:PDF},
  owner = {Tiago Marques},
  publisher = {Public Library of Science},
  timestamp = {2015.04.10},
  url = {http://dx.doi.org/10.1371%2Fjournal.pone.0119631}
}

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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 <ext-link xmlns:xlink=\"http://www.w3.org/1999/xlink\" ext-link-type=\"uri\" xlink:href=\"http://xldb.di.fc.ul.pt/gryfun/\" xlink:type=\"simple\">http://xldb.di.fc.ul.pt/gryfun/</ext-link> 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.</p>","doi":"10.1371/journal.pone.0119631","file":":Bastosetal2015journal.pone.0119631.pdf:PDF","owner":"Tiago Marques","publisher":"Public Library of Science","timestamp":"2015.04.10","url":"http://dx.doi.org/10.1371%2Fjournal.pone.0119631","bibtex":"@ARTICLE{10.1371/journal.pone.0119631,\r\n author = {Bastos, Hugo P. AND Sousa, Lisete AND Clarke, Luka A. AND Couto,\r\n\tFrancisco M.},\r\n title = {GRYFUN: A Web Application for GO Term Annotation Visualization and\r\n\tAnalysis in Protein Sets},\r\n journal = {PLoS ONE},\r\n year = {2015},\r\n volume = {10},\r\n pages = {e0119631},\r\n number = {3},\r\n month = {03},\r\n abstract = {<p>Functional context for biological sequence is provided in the form\r\n\tof annotations. 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