BioSig: An Imaging and Informatic System for Phenotypic Studies
IEEE Transaction on Systems, Man, Cybernetics, Oct. 2003..
B. Parvin
Q. Yang
G. Fontenay
M. H. Barcellos-Hoff
ABSTRACT
Organisms express their genomes in a cell-specific manner, resulting in a
variety of cellular phenotypes or phenomes. Mapping cell phenomes under a
variety of experimental conditions is necessary in order to
understand the responses
of organisms to stimuli. Representing such data requires an integrated view
of experimental and informatic protocols.
The proposed system, named BioSig, provides the foundation for
cataloging cellular responses as a function of specific conditioning,
treatment, staining, etc. for either fixed tissue or
living cell studies.
A data model has been developed to capture experimental variables
and map them to image collections and their computed
representation. This representation is hierarchical and
spans across sample tissues, cells, and organelles, which are imaged with l
ight microscopy. At each layer,
content is represented with an attributed graph, which
contains information about cellular
morphology, protein localization, and cellular
organization in tissue or cell culture.
The web-based multilayer informatics architecture uses the data model to p
rovide guided workflow access for content exploration.
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B. Parvin