Biology Faculty Articles
Title
Genome Annotation Resource Fields- GARFIELD: A Genome Browser for Felis catus
Document Type
Article
Publication Date
7-2007
Publication Title
Journal of Heredity
ISSN
0022-1503
Volume
98
Issue/No.
5
First Page
386
Last Page
389
Abstract
Annotation features from the 1.9-fold whole-genome shotgun (WGS) sequences of domestic cat have been organized into an interactive web application, Genome Annotation Resource Fields (GARFIELD) (http://lgd.abcc.ncifcrf.gov) at the Laboratory of Genomic Diversity and Advanced Biomedical Computing Center (ABCC) at The National Cancer Institute (NCI). The GARFIELD browser allows the user to view annotations on a per chromosome basis with unplaced contigs provided on placeholder chromosomes. Various tracks on the browser allow display of annotations. A Genes track on the browser includes 20 285 regions that align to genes annotated in other mammalian genomes: Homo sapiens, Pan troglodytes, Mus musculus, Rattus norvegicus, Bos taurus, and Canis familiaris. Also available are tracks that display the contigs that make up the chromosomes and representations of their GC content and repetitive elements as detected using the RepeatMasker (http://www.repeatmasker.org). Data from the browser can be downloaded in FASTA and GFF format, and users can upload their own data to the display. The Felis catus sequences and their chromosome assignments and additional annotations incorporate data analyzed and produced by a multicenter collaboration between NCI, ABCC, Agencourt Biosciences Corporation, Broad Institute of Harvard and Massachusetts Institute of Technology, National Human Genome Research Institute, National Center for Biotechnology and Information, and Texas A&M.
Additional Comments
National Cancer Institute contract #: N01-CO-12400
NSUWorks Citation
Pontius, J. U. and Stephen J. O'Brien. 2007. "Genome Annotation Resource Fields- GARFIELD: A Genome Browser for Felis catus." Journal of Heredity 98, (5): 386-389. https://nsuworks.nova.edu/cnso_bio_facarticles/503
ORCID ID
0000-0001-7353-8301
ResearcherID
N-1726-2015
Comments
©2007 Oxford University press