FALDO: a semantic standard for describing the location of nucleotide and protein feature annotation.

Journal: Journal of biomedical semantics
PMID: 27296299

Abstract

BACKGROUND: Nucleotide and protein sequence feature annotations are essential to understand biology on the genomic, transcriptomic, and proteomic level. Using Semantic Web technologies to query biological annotations, there was no standard that described this potentially complex location information as subject-predicate-object triples.

Authors

  • Jerven T Bolleman
    Swiss-Prot group, SIB Swiss Institute of Bioinformatics, Centre Medical Universitaire, 1 rue Michel, Servet, Geneva 4, 1211, Switzerland. jerven.bolleman@sib.swiss.
  • Christopher J Mungall
    Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720, USA.
  • Francesco Strozzi
    CeRSA, Parco Tecnologico Padano, Lodi, 26900, Italy.
  • Joachim Baran
    CODAMONO, 5-121 Marion Street, Toronto, M6R 1E6, Ontario, Canada.
  • Michel Dumontier
    Stanford University, Stanford, CA USA.
  • Raoul J P Bonnal
    Integrative Biology Program, Istituto Nazionale Genetica Molecolare, Milan, Italy.
  • Robert Buels
    University of California, Berkeley, Berkeley, CA, USA.
  • Robert Hoehndorf
    Computational Bioscience Research Center, King Abdullah University of Science and Technology, 4700 KAUST, Thuwal, 23955-6900, Saudi Arabia. robert.hoehndorf@kaust.edu.sa.
  • Takatomo Fujisawa
    Center for Information Biology, National Institute of Genetics, Research Organization of Information and Systems, 1111 Yata, Mishima, Shizuoka, 411-08540, Japan.
  • Toshiaki Katayama
    Database Center for Life Science, Research Organization of Information and Systems, 2-11-16, Yayoi, Bunkyo-ku, Tokyo, 113-0032, Japan.
  • Peter J A Cock
    The James Hutton Institute, Dundee, DD2 5DA, UK.

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