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      GoMiner: a resource for biological interpretation of genomic and proteomic data

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          Abstract

          GoMiner, a program package that organizes lists of 'interesting' genes for biological interpretation in the context of the Gene Ontology, has been developed.

          Abstract

          We have developed GoMiner, a program package that organizes lists of 'interesting' genes (for example, under- and overexpressed genes from a microarray experiment) for biological interpretation in the context of the Gene Ontology. GoMiner provides quantitative and statistical output files and two useful visualizations. The first is a tree-like structure analogous to that in the AmiGO browser and the second is a compact, dynamically interactive 'directed acyclic graph'. Genes displayed in GoMiner are linked to major public bioinformatics resources.

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          Gene Ontology: tool for the unification of biology

          Michael Ashburner, Catherine A. Ball, Judith Blake … (2002)
          Genomic sequencing has made it clear that a large fraction of the genes specifying the core biological functions are shared by all eukaryotes. Knowledge of the biological role of such shared proteins in one organism can often be transferred to other organisms. The goal of the Gene Ontology Consortium is to produce a dynamic, controlled vocabulary that can be applied to all eukaryotes even as knowledge of gene and protein roles in cells is accumulating and changing. To this end, three independent ontologies accessible on the World-Wide Web (http://www.geneontology.org) are being constructed: biological process, molecular function and cellular component.
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            Categorical Data Analysis

            Alan Agresti (2002)
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              A Survey of Exact Inference for Contingency Tables

              Alan Agresti (1992)
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                Author and article information

                Journal
                Journal ID (nlm-ta): Genome Biol
                Title: Genome Biology
                Publisher: BioMed Central (London )
                ISSN (Print): 1465-6906
                ISSN (Electronic): 1465-6914
                Publication date (Print): 2003
                Publication date (Electronic): 25 March 2003
                Volume: 4
                Issue: 4
                Page: R28
                Affiliations
                [1 ]Genomics and Bioinformatics Group, Laboratory of Molecular Pharmacology, National Cancer Institute, National Institutes of Health, Bethesda, MD 20892, USA
                [2 ]The Wallace H. Coulter Biomedical Engineering Department, Georgia Institute of Technology and Emory University, Atlanta, GA 30332-0535, USA
                [3 ]Computer Science and Chemistry Departments, Georgia Institute of Technology, Atlanta, GA 30332, USA
                [4 ]SRA International, 4300 Fair Lakes CT, Fairfax, VA 22033, USA
                [5 ]Laboratory of Biosystems and Cancer, National Cancer Institute, Bethesda, MD 20892, USA
                Correspondence: John N Weinstein. E-mail: weinstein@dtpax2.ncifcrf.gov
                Article
                Publisher ID: gb-2003-4-4-r28
                DOI: 10.1186/gb-2003-4-4-r28
                PMC ID: 154579
                PubMed ID: 12702209
                SO-VID: 999a2cb6-d1c7-4e28-9cb1-ad1c00100b30
                Copyright © Copyright © 2003 Zeeberg et al.; licensee BioMed Central Ltd. This is an Open Access article: verbatim copying and redistribution of this article are permitted in all media for any purpose, provided this notice is preserved along with the article's original URL.
                History
                Date received : 1 November 2002
                Date revision received : 29 January 2003
                Date accepted : 28 February 2003
                Categories
                Subject: Software

                ScienceOpen disciplines: Genetics
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                ScienceOpen disciplines: Genetics

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