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Surkova, S., Myasnikova, E., Janssens, H., Kozlov, K.N., Samsonova, A.A., Reinitz, J., Samsonova, M. (2008). Pipeline for acquisition of quantitative data on segmentation gene expression from confocal images.  Fly 2(2): 58--66.
FlyBase ID
FBrf0209700
Publication Type
Research paper
Abstract

We describe a data pipeline developed to extract the quantitative data on segmentation gene expression from confocal images of gene expression patterns in Drosophila. The pipeline consists of five steps: image segmentation, background removal, temporal characterization of an embryo, data registration and data averaging. This pipeline was successfully applied to obtain quantitative gene expression data at cellular resolution in space and at the 6.5-minute resolution in time, as well as to construct a spatiotemporal atlas of segmentation gene expression. Each data pipeline step can be easily adapted to process a wide range of images of gene expression patterns.

PubMed ID
PubMed Central ID
PMC2803333 (PMC) (EuropePMC)
DOI
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    Language of Publication
    English
    Additional Languages of Abstract
    Parent Publication
    Publication Type
    Journal
    Abbreviation
    Fly
    Title
    Fly
    Publication Year
    2007-
    ISBN/ISSN
    1933-6934 1933-6942
    Data From Reference
    Genes (15)