Seung Yon Rhee

Summary

Affiliation: Stanford University
Country: USA

Publications

  1. ncbi Surviving in a sea of data: a survey of plant genome data resources and issues in building data management systems
    Leonore Reiser
    Carnegie Institution, Department of Plant Biology, Stanford, CA 94305, USA
    Plant Mol Biol 48:59-74. 2002
  2. ncbi The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community
    Seung Yon Rhee
    Carnegie Institution of Washington, 260 Panama Street, Stanford, CA 94305, USA
    Nucleic Acids Res 31:224-8. 2003
  3. ncbi Bioinformatics and its applications in plant biology
    Seung Yon Rhee
    Department of Plant Biology, Carnegie Institution, Stanford, California 94305, USA
    Annu Rev Plant Biol 57:335-60. 2006
  4. ncbi MIAME/Plant - adding value to plant microarrray experiments
    Philip Zimmermann
    Swiss Federal Institute of Technology ETH Zurich, ETH Center, CH 8092 Zurich, Switzerland
    Plant Methods 2:1. 2006
  5. ncbi An ontology for cell types
    Jonathan Bard
    Department of Biomedical Sciences, Hugh Robson Building, University of Edinburgh, Edinburgh, EH8 9XD, UK
    Genome Biol 6:R21. 2005
  6. ncbi The rules of gene expression in plants: organ identity and gene body methylation are key factors for regulation of gene expression in Arabidopsis thaliana
    Felipe F Aceituno
    Departamento de Genetica Molecular y Microbiologia, Pontificia Universidad Catolica de Chile, Santiago, Chile
    BMC Genomics 9:438. 2008
  7. ncbi Carpe diem. Retooling the publish or perish model into the share and survive model
    Seung Yon Rhee
    Carnegie Institution, Department of Plant Biology, 260 Panama Street, Stanford, California 94305, USA
    Plant Physiol 134:543-7. 2004
  8. ncbi Bioinformatics. Current limitations and insights for the future
    Seung Yon Rhee
    Department of Plant Biology, Carnegie Institution, Stanford, California 94305, USA
    Plant Physiol 138:569-70. 2005
  9. ncbi Use and misuse of the gene ontology annotations
    Seung Yon Rhee
    Carnegie Institution for Science, Department of Plant Biology, 260 Panama Street, Stanford, California 94305, USA
    Nat Rev Genet 9:509-15. 2008
  10. ncbi Using the Arabidopsis Information Resource (TAIR) to find information about Arabidopsis genes
    Leonore Reiser
    The Arabidopsis Information Resource, Carnegie Institution, Stanford, California, USA
    Curr Protoc Bioinformatics . 2005

Research Grants

  1. A Literature Curation Tool for Organism Databases
    Seung Rhee; Fiscal Year: 2003
  2. First International Biocurator Meeting
    Seung Rhee; Fiscal Year: 2006

Collaborators

Detail Information

Publications12

  1. ncbi Surviving in a sea of data: a survey of plant genome data resources and issues in building data management systems
    Leonore Reiser
    Carnegie Institution, Department of Plant Biology, Stanford, CA 94305, USA
    Plant Mol Biol 48:59-74. 2002
    ..These concepts include data descriptions, exchange format, curation, attribution, and database implementation...
  2. ncbi The Arabidopsis Information Resource (TAIR): a model organism database providing a centralized, curated gateway to Arabidopsis biology, research materials and community
    Seung Yon Rhee
    Carnegie Institution of Washington, 260 Panama Street, Stanford, CA 94305, USA
    Nucleic Acids Res 31:224-8. 2003
    ..Finally, we have recently incorporated seed and DNA stock information from the Arabidopsis Biological Resource Center (ABRC) and implemented a shopping-cart style on-line ordering system...
  3. ncbi Bioinformatics and its applications in plant biology
    Seung Yon Rhee
    Department of Plant Biology, Carnegie Institution, Stanford, California 94305, USA
    Annu Rev Plant Biol 57:335-60. 2006
    ..Finally, we explore a few emerging research topics in bioinformatics...
  4. ncbi MIAME/Plant - adding value to plant microarrray experiments
    Philip Zimmermann
    Swiss Federal Institute of Technology ETH Zurich, ETH Center, CH 8092 Zurich, Switzerland
    Plant Methods 2:1. 2006
    ..The power and value of systematic annotation of microarray data is convincingly demonstrated by data warehouses such as Genevestigator(R) or NASCArrays, and better experimental annotation will make these applications even more powerful...
  5. ncbi An ontology for cell types
    Jonathan Bard
    Department of Biomedical Sciences, Hugh Robson Building, University of Edinburgh, Edinburgh, EH8 9XD, UK
    Genome Biol 6:R21. 2005
    ..The ontology is freely available at http://obo.sourceforge.net/ and can be viewed using standard ontology visualization tools such as OBO-Edit and COBrA...
  6. ncbi The rules of gene expression in plants: organ identity and gene body methylation are key factors for regulation of gene expression in Arabidopsis thaliana
    Felipe F Aceituno
    Departamento de Genetica Molecular y Microbiologia, Pontificia Universidad Catolica de Chile, Santiago, Chile
    BMC Genomics 9:438. 2008
    ..This huge amount of data offers a unique opportunity to infer the principles that govern the regulation of gene expression in plants...
  7. ncbi Carpe diem. Retooling the publish or perish model into the share and survive model
    Seung Yon Rhee
    Carnegie Institution, Department of Plant Biology, 260 Panama Street, Stanford, California 94305, USA
    Plant Physiol 134:543-7. 2004
  8. ncbi Bioinformatics. Current limitations and insights for the future
    Seung Yon Rhee
    Department of Plant Biology, Carnegie Institution, Stanford, California 94305, USA
    Plant Physiol 138:569-70. 2005
  9. ncbi Use and misuse of the gene ontology annotations
    Seung Yon Rhee
    Carnegie Institution for Science, Department of Plant Biology, 260 Panama Street, Stanford, California 94305, USA
    Nat Rev Genet 9:509-15. 2008
    ..Here we describe key aspects of GO, which, when overlooked, can cause erroneous results, and address how these pitfalls can be avoided...
  10. ncbi Using the Arabidopsis Information Resource (TAIR) to find information about Arabidopsis genes
    Leonore Reiser
    The Arabidopsis Information Resource, Carnegie Institution, Stanford, California, USA
    Curr Protoc Bioinformatics . 2005
    ..Two pattern identification programs are described for mining TAIR's unique Arabidopsis sequence data sets. We also describe how to use AraCyc for mining plant metabolic pathways...
  11. ncbi Creation of a genome-wide metabolic pathway database for Populus trichocarpa using a new approach for reconstruction and curation of metabolic pathways for plants
    Peifen Zhang
    Department of Plant Biology, Carnegie Institution, Stanford, California 94305, USA
    Plant Physiol 153:1479-91. 2010
    ..These resources can be searched by text or BLAST, browsed, and downloaded from our project Web site (http://plantcyc.org)...
  12. ncbi Biological databases for plant research
    Seung Yon Rhee
    Plant Physiol 138:1-3. 2005

Research Grants3

  1. A Literature Curation Tool for Organism Databases
    Seung Rhee; Fiscal Year: 2003
    ..The system will be central to the curation efforts of the collaborating databases and will be useable as a whole or in parts by other existing or emerging MODs. ..
  2. First International Biocurator Meeting
    Seung Rhee; Fiscal Year: 2006
    ....