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Search Results to John Reinitz

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overview My laboratory is engaged in a long term project to understand how DNA sequence specifies biological form. We are interested not only in the specification of typical form by a typical genome, but also in the effects of variability. Such variability might take the form of genetic variation in a population or intrinsic fluctuations in an individual. These problems touch on issues central to developmental and evolutionary biology, and efforts to solve them have previously led to the development of new branches of mathematics. We consider these issues in the specific context of segment determination in the fruit fly Drosophila melanogaster, but actively seek collaborations with investigators working on other organisms or with pure theoreticians. The starting point for our own investigations are quantitative data on gene expression, extracted from images of confocally scanned fixed or living embryos. We use this numerical information to find parameter sets for specific models of fundamental processes of gene regulation and pattern formation by means of large scale optimization procedures performed on parallel computers. These models may be specified in terms of DNA sequence or be more coarse-grained. They might take the form of a dynamical system, deterministic or stochastic, or simply be a complex but explicit mathematical function. Our goal is to use every tool in the toolbox—wet experiments, statistics, computational science, and mathematics—to solve a well focused scientific problem: how does a fly go from DNA sequence to a fate map of presumptive segments at single cell resolution?

One or more keywords matched the following items that are connected to Reinitz, John

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Concept Drosophila melanogaster
Academic Article Model for cooperative control of positional information in Drosophila by bicoid and maternal hunchback.
Academic Article Automated assay of gene expression at cellular resolution.
Academic Article Bicoid cooperative DNA binding is critical for embryonic patterning in Drosophila.
Academic Article Dynamic control of positional information in the early Drosophila embryo.
Academic Article A method for two-dimensional registration and construction of the two-dimensional atlas of gene expression patterns in situ.
Academic Article Reverse engineering the gap gene network of Drosophila melanogaster.
Academic Article Removal of background signal from in situ data on the expression of segmentation genes in Drosophila.
Academic Article Quantitative and predictive model of transcriptional control of the Drosophila melanogaster even skipped gene.
Academic Article Mechanisms of gap gene expression canalization in the Drosophila blastoderm.
Academic Article [Methods for acquisition of quantitative from confocal images of gene expression in situ].
Academic Article Canalization of gene expression in the Drosophila blastoderm by gap gene cross regulation.
Academic Article Rearrangements of 2.5 kilobases of noncoding DNA from the Drosophila even-skipped locus define predictive rules of genomic cis-regulatory logic.
Academic Article A connectionist model of development.
Academic Article Dynamical analysis of regulatory interactions in the gap gene system of Drosophila melanogaster.
Academic Article Developmental biology: a ten per cent solution.
Academic Article [A model with asymptotically stable dynamics for the network of Drosophila gap genes].
Academic Article FlyEx, the quantitative atlas on segmentation gene expression at cellular resolution.
Academic Article GCPReg package for registration of the segmentation gene expression data in Drosophila.
Academic Article Drosophila blastoderm patterning.
Academic Article Ancestral resurrection of the Drosophila S2E enhancer reveals accessible evolutionary paths through compensatory change.
Academic Article A synthetic biology approach to the development of transcriptional regulatory models and custom enhancer design.
Academic Article Natural variation of the expression pattern of the segmentation gene even-skipped in melanogaster.
Academic Article Known maternal gradients are not sufficient for the establishment of gap domains in Drosophila melanogaster.
Academic Article Synthetic enhancer design by in silico compensatory evolution reveals flexibility and constraint in cis-regulation.

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  • Drosophila melanogaster