Biological knowledge is inherently complex and so cannot readily be integrated into existing
databases of molecular (for example, sequence) data. An ontology is a formal way of …

DNA microarrays have been widely applied to the study of human cancer, delineating
myriad molecular subtypes of cancer, many of which are associated with distinct biological …

Gene Ontology (GO), the de facto standard in gene functionality description, is used widely
in functional annotation and enrichment analysis. Here, we introduce agriGO, an integrated …

Background Gene-set enrichment analysis is a useful technique to help functionally
characterize large gene lists, such as the results of gene expression experiments. This …

Motivation: High-throughput technologies such as DNA sequencing and microarrays have
created the need for automated annotation of large sets of genes, including whole genomes …

Abstract The DAVID Gene Functional Classification Tool http://david. abcc. ncifcrf. gov uses
a novel agglomeration algorithm to condense a list of genes or associated biological terms …

All tools in the DAVID Bioinformatics Resources aim to provide functional interpretation of
large lists of genes derived from genomic studies. The newly updated DAVID Bioinformatics …

GO:: TermFinder comprises a set of object-oriented Perl modules for accessing Gene
Ontology (GO) information and evaluating and visualizing the collective annotation of a list of …

Abstract g: Profiler (http://biit. cs. ut. ee/gprofiler/) is a public web server for characterising
and manipulating gene lists resulting from mining high-throughput genomic data. g: Profiler …

Motivation: Many practical pattern recognition problems require non-negativity constraints.
For example, pixels in digital images and chemical concentrations in bioinformatics are non …