Registering Drosophila Embryos at Cellular Resolution to Build a Quantitative 3D Atlas of Gene Expression Patterns and Morphology

Authors:
Charless C. Fowlkes;Jitendra Malik;Cris L. Luengo Hendriks;Soile V. E. Keranen;Mark D. Biggin;David W. Knowles;Damir Sudar
Affiliations:
University of California, Berkeley;University of California, Berkeley;Lawrence Berkeley National Laboratory;Lawrence Berkeley National Laboratory;Lawrence Berkeley National Laboratory;Lawrence Berkeley National Laboratory;Lawrence Berkeley National Laboratory
Venue:
CSBW '05 Proceedings of the 2005 IEEE Computational Systems Bioinformatics Conference - Workshops
Year:
2005

Citing 0
Cited 3

Visual Exploration of Three-Dimensional Gene Expression Using Physical Views and Linked Abstract Views

IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
Integrating Data Clustering and Visualization for the Analysis of 3D Gene Expression Data

IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB)
PointCloudXplore: visual analysis of 3d gene expression data using physical views and parallel coordinates

EUROVIS'06 Proceedings of the Eighth Joint Eurographics / IEEE VGTC conference on Visualization

Quantified Score

Hi-index	0.00

Visualization

Abstract

The Berkeley Drosophila Transcription Network Project is developing a suite of methods to convert volumetric data generated by confocal fluorescence microscopy into numerical, three dimensional representations of gene expression at cellular resolution. One key difficulty is that fluorescence microscopy can only capture expression levels for a few gene products in a given animal. We report on a method for registering 3D expression data from different Drosophila embryos stained for overlapping subsets of gene products in order to build a composite atlas, ultimately containing coexpression information for thousands of genes. Our techniques have also allowed the discovery of a complex pattern of cell density across the blastula that changes over time and may play a role in gastrulation.