title: FlyExpress: visual mining of spatiotemporal patterns for genes and publications in Drosophila embryogenesis.
abstract: CONCLUSIONS
  Images containing spatial expression patterns illuminate the roles of different genes during embryogenesis. In order to generate initial clues to regulatory interactions, biologists frequently need to know the set of genes expressed at the same time at specific locations in a developing embryo, as well as related research publications. However, text-based mining of image annotations and research articles cannot produce all relevant results, because the primary data are images that exist as graphical objects. We have developed a unique knowledge base (FlyExpress) to facilitate visual mining of images from Drosophila melanogaster embryogenesis. By clicking on specific locations in pictures of fly embryos from different stages of development and different visual projections, users can produce a list of genes and publications instantly. In FlyExpress, each queryable embryo picture is a heat-map that captures the expression patterns of more than 4500 genes and more than 2600 published articles. In addition, one can view spatial patterns for particular genes over time as well as find other genes with similar expression patterns at a given developmental stage. Therefore, FlyExpress is a unique tool for mining spatiotemporal expression patterns in a format readily accessible to the scientific community.
  
  
  BACKGROUND
  http://www.flyexpress.net
  
  
  BACKGROUND
  s.kumar@asu.edu.
authors: Center for Evolutionary Medicine and Informatics, Biodesign Institute, Arizona State University, Tempe, AZ 85287, USA. s.kumar@asu.edu
authors: Sudhir
authors: S
authors: Kumar
authors: Charlotte
authors: C
authors: Konikoff
authors: Bernard
authors: B
authors: Van Emden
authors: Christopher
authors: C
authors: Busick
authors: Kailah T
authors: KT
authors: Davis
authors: Shuiwang
authors: S
authors: Ji
authors: Lin-Wei
authors: LW
authors: Wu
authors: Hector
authors: H
authors: Ramos
authors: Thomas
authors: T
authors: Brody
authors: Sethuraman
authors: S
authors: Panchanathan
authors: Jieping
authors: J
authors: Ye
authors: Timothy L
authors: TL
authors: Karr
authors: Kristyn
authors: K
authors: Gerold
authors: Michael
authors: M
authors: McCutchan
authors: Stuart J
authors: SJ
authors: Newfeld
mesh_terms: D000818:Animals; D001296:Audiovisual Aids; D057225:Data Mining; D029721:Drosophila Proteins / Q000235:genetics* / Q000378:metabolism; D004331:Drosophila melanogaster / Q000196:embryology* / Q000235:genetics* / Q000378:metabolism; D047108:Embryonic Development; D020869:Gene Expression Profiling; D018507:Gene Expression Regulation, Developmental
chemical_list: D029721:Drosophila Proteins