title: myFX: a turn-key software for laboratory desktops to analyze spatial patterns of gene expression in Drosophila embryos.
abstract: Spatial patterns of gene expression are of key importance in understanding developmental networks. Using in situ hybridization, many laboratories are generating images to describe these spatial patterns and to test biological hypotheses. To facilitate such analyses, we have developed biologist-centric software (myFX) that contains computational methods to automatically process and analyze images depicting embryonic gene expression in the fruit fly Drosophila melanogaster. It facilitates creating digital descriptions of spatial patterns in images and enables measurements of pattern similarity and visualization of expression across genes and developmental stages. myFX interacts directly with the online FlyExpress database, which allows users to search thousands of existing patterns to find co-expressed genes by image comparison.
authors.affiliation: Center for Evolutionary Medicine and Informatics, Biodesign Institute, Arizona State University (ASU), Tempe, AZ 85287, USA, Department of Molecular and Cellular Biology, Harvard University, Cambridge, MA 02138, USA, School of Computing, Informatics, and Decision Systems Engineering, ASU, Tempe, AZ 85287, USA, School of Life Sciences, ASU, Tempe, AZ 85287, USA and Center of Excellence in Genomic Medicine Research, King Abdulaziz University, Jeddah, Saudi Arabia.
authors.forename: Ivan
authors.initials: I
authors.lastname: Montiel
authors.forename: Charlotte
authors.initials: C
authors.lastname: Konikoff
authors.forename: Bremen
authors.initials: B
authors.lastname: Braun
authors.forename: Mary
authors.initials: M
authors.lastname: Packard
authors.forename: Sian L
authors.initials: SL
authors.lastname: Gramates
authors.forename: Qian
authors.initials: Q
authors.lastname: Sun
authors.forename: Jieping
authors.initials: J
authors.lastname: Ye
authors.forename: Sudhir
authors.initials: S
authors.lastname: Kumar
mesh_terms: D000818:Animals; D004331:Drosophila melanogaster / Q000196:embryology / Q000235:genetics*; D015870:Gene Expression; D020869:Gene Expression Profiling / Q000379:methods*; D018507:Gene Expression Regulation, Developmental; D012984:Software