Ekaterina M. Myasnikova

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BACKGROUND Extensive variation in early gap gene expression in the Drosophila blastoderm is reduced over time because of gap gene cross regulation. This phenomenon is a manifestation of canalization, the ability of an organism to produce a consistent phenotype despite variations in genotype or environment. The canalization of gap gene expression can be(More)
MOTIVATION To construct an integrated map of Drosophila segmentation gene expression from partial data taken from individual embryos. RESULTS Spline and wavelet based registration techniques were developed to register Drosophila segmentation gene expression data. As ground control points for registration we used the locations of extrema on gene expression(More)
The application of image registration techniques resulted in the construction of an integrated atlas of Drosophila segmentation gene expression in both space and time. The registration method was based on a quadratic spline approximation with flexible knots. A classifier for automatic attribution of an embryo to one of the temporal classes according to its(More)
We apply the fast redundant dyadic wavelet transform to the spatial registration of two-dimensional gene expression patterns of 736 Drosophila melanogaster embryos. This method is superior to the Fourier transform or windowed Fourier transform because of its ability to reduce noise and is of high resolution. In registration of the dataset we use two cost(More)
MOTIVATION Currently the confocal scanning microscopy of fluorescently tagged molecules is extensively employed to acquire quantitative data on gene expression at cellular resolution. Following this approach, we generated a large dataset on the expression of segmentation genes in the Drosophila blastoderm, that is widely used in systems biology studies. As(More)
Gene network simulations are increasingly used to quantify mutual gene regulation in biological tissues. These are generally based on linear interactions between single-entity regulatory and target genes. Biological genes, by contrast, commonly have multiple, partially independent, cis-regulatory modules (CRMs) for regulator binding, and can produce variant(More)
In this paper, a specific aspect of the prediction problem is considered: high predictive power is understood as a possibility to reproduce correct behavior of model solutions at predefined values of a subset of parameters. The problem is discussed in the context of a specific mathematical model, the gene circuit model for segmentation gap gene system in(More)
We present a novel tool for processing and analysis of images of gene expression patterns stored in a relational database. This tool, known as ImageServer, is portable across different software/hardware platforms and supports both basic and subject domain oriented operations on images. The tool is used to process and analyze images stored in FlyEx database(More)