J Michael Cherry

Summary

Affiliation: Stanford University
Country: USA

Publications

  1. Sheppard T, Hitz B, Engel S, Song G, Balakrishnan R, Binkley G, et al. The Saccharomyces Genome Database Variant Viewer. Nucleic Acids Res. 2016;44:D698-702 pubmed publisher
    ..cerevisiae strains and stored in the SGD. The alignments and summaries are encoded in JSON and used to create a two-tiered dynamic view of the budding yeast pan-genome, available at http://www.yeastgenome.org/variant-viewer. ..
  2. Sloan C, Chan E, Davidson J, Malladi V, Strattan J, Hitz B, et al. ENCODE data at the ENCODE portal. Nucleic Acids Res. 2016;44:D726-32 pubmed publisher
    ..The portal experience was designed to improve access to ENCODE data by relying on metadata that allow reusability and reproducibility of the experiments. ..
  3. Cherry J, Hong E, Amundsen C, Balakrishnan R, Binkley G, Chan E, et al. Saccharomyces Genome Database: the genomics resource of budding yeast. Nucleic Acids Res. 2012;40:D700-5 pubmed publisher
    ..Public access to these data is provided to researchers and educators via web pages designed for optimal ease of use. ..
  4. Hong E, Sloan C, Chan E, Davidson J, Malladi V, Strattan J, et al. Principles of metadata organization at the ENCODE data coordination center. Database (Oxford). 2016;2016: pubmed publisher
    ..In addition, we present how the data are validated and used by the ENCODE DCC in creating the ENCODE Portal (https://www.encodeproject.org/). Database URL: www.encodeproject.org. ..
  5. Song G, Balakrishnan R, Binkley G, Costanzo M, Dalusag K, Demeter J, et al. Integration of new alternative reference strain genome sequences into the Saccharomyces genome database. Database (Oxford). 2016;2016: pubmed publisher
    ..We illustrate how these genome sequences can be utilized to aid our understanding of strain-specific functional and phenotypic differences.Database URL: www.yeastgenome.org. ..
  6. Ashburner M, Ball C, Blake J, Botstein D, Butler H, Cherry J, et al. Gene ontology: tool for the unification of biology. The Gene Ontology Consortium. Nat Genet. 2000;25:25-9 pubmed