title: ADGO 2.0: interpreting microarray data and list of genes using composite annotations.
abstract: ADGO 2.0 is a web-based tool that provides composite interpretations for microarray data comparing two sample groups as well as lists of genes from diverse sources of biological information. Some other tools also incorporate composite annotations solely for interpreting lists of genes but usually provide highly redundant information. This new version has the following additional features: first, it provides multiple gene set analysis methods for microarray inputs as well as enrichment analyses for lists of genes. Second, it screens redundant composite annotations when generating and prioritizing them. Third, it incorporates union and subtracted sets as well as intersection sets. Lastly, users can upload their own gene sets (e.g. predicted miRNA targets) to generate and analyze new composite sets. The first two features are unique to ADGO 2.0. Using our tool, we demonstrate analyses of a microarray dataset and a list of genes for T-cell differentiation. The new ADGO is available at http://www.btool.org/ADGO2.
authors.affiliation: School of Computer Science and Engineering, Kyungsung University, Busan, Rep. of Korea.
authors.forename: Sang-Mun
authors.initials: SM
authors.lastname: Chi
authors.forename: Jin
authors.initials: J
authors.lastname: Kim
authors.forename: Seon-Young
authors.initials: SY
authors.lastname: Kim
authors.forename: Dougu
authors.initials: D
authors.lastname: Nam
mesh_terms: D000818:Animals; D002454:Cell Differentiation; D020869:Gene Expression Profiling / Q000379:methods*; D005796:Genes; D006801:Humans; D020407:Internet; D051379:Mice; D058977:Molecular Sequence Annotation; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods*; D051381:Rats; D012984:Software; D013601:T-Lymphocytes / Q000166:cytology / Q000378:metabolism