Publications by authors named "David W Knowles"

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Enhancing image quality in cleared tissue with adaptive optics.
Marc R Reinig, Samuel W Novak, Xiaodong Tao, Laurent A Bentolila, Dustin G Roberts, David W Knowles

J Biomed Opt· December 2016

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Building quantitative, three-dimensional atlases of gene expression and morphology at cellular resolution.
David W Knowles, Mark D Biggin

Wiley Interdiscip Rev Dev Biol· April 2014

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Volumetric Semantic Segmentation using Pyramid Context Features.
Jonathan T Barron, Pablo Arbeláez, Soile V E Keränen, Mark D Biggin, David W Knowles

Proc IEEE Int Conf Comput Vis· December 2013

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Three-dimensional morphology and gene expression mapping for the Drosophila blastoderm.
David W Knowles

Cold Spring Harb Protoc· February 2012

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A conserved developmental patterning network produces quantitatively different output in multiple species of Drosophila.
Charless C Fowlkes, Kelly B Eckenrode, Meghan D Bragdon, Miriah Meyer, Zeba Wunderlich, David W Knowles

PLoS Genet· October 2011

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Nonparametric identification of regulatory interactions from spatial and temporal gene expression data.
Anil Aswani, Soile V E Keränen, James Brown, Charless C Fowlkes, David W Knowles

BMC Bioinformatics· August 2010

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Integrating data clustering and visualization for the analysis of 3D gene expression data.
Oliver Rübel, Gunther H Weber, Min-Yu Huang, E Wes Bethel, Mark D Biggin, David W Knowles

IEEE/ACM Trans Comput Biol Bioinform· May 2010

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Coupling visualization and data analysis for knowledge discovery from multi-dimensional scientific data.
Oliver Rübel, Sean Ahern, E Wes Bethel, Mark D Biggin, Hank Childs, David W Knowles

Procedia Comput Sci· May 2010

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Developmental roles of 21 Drosophila transcription factors are determined by quantitative differences in binding to an overlapping set of thousands of genomic regions.
Stewart MacArthur, Xiao-Yong Li, Jingyi Li, James B Brown, Hou Cheng Chu, David W Knowles

Genome Biol· January 2010

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Visual exploration of three-dimensional gene expression using physical views and linked abstract views.
Gunther H Weber, Oliver Rübel, Min-Yu Huang, Angela H DePace, Charless C Fowlkes, David W Knowles

IEEE/ACM Trans Comput Biol Bioinform· August 2009

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A quantitative spatiotemporal atlas of gene expression in the Drosophila blastoderm.
Charless C Fowlkes, Cris L Luengo Hendriks, Soile V E Keränen, Gunther H Weber, Oliver Rübel, David W Knowles

Cell· April 2008

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Transcription factors bind thousands of active and inactive regions in the Drosophila blastoderm.
Xiao-yong Li, Stewart MacArthur, Richard Bourgon, David Nix, Daniel A Pollard, David W Knowles

PLoS Biol· February 2008

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Automatic channel unmixing for high-throughput quantitative analysis of fluorescence images.
Cris L Luengo Hendriks, Soile V Keränen, Mark D Biggin, David W Knowles

Opt Express· September 2007

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Phenotype clustering of breast epithelial cells in confocal images based on nuclear protein distribution analysis.
Fuhui Long, Hanchuan Peng, Damir Sudar, Sophie A Lelièvre, David W Knowles

BMC Cell Biol· July 2007

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Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution I: data acquisition pipeline.
Cris L Luengo Hendriks, Soile V E Keränen, Charless C Fowlkes, Lisa Simirenko, Gunther H Weber, David W Knowles

Genome Biol· May 2007

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Three-dimensional morphology and gene expression in the Drosophila blastoderm at cellular resolution II: dynamics.
Soile V E Keränen, Charless C Fowlkes, Cris L Luengo Hendriks, Damir Sudar, David W Knowles

Genome Biol· May 2007

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The control of tissue architecture over nuclear organization is crucial for epithelial cell fate.
Gurushankar Chandramouly, Patricia C Abad, David W Knowles, Sophie A Lelièvre

J Cell Sci· May 2007

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NuMA influences higher order chromatin organization in human mammary epithelium.
Patricia C Abad, Jason Lewis, I Saira Mian, David W Knowles, Jennifer Sturgis

Mol Biol Cell· February 2007

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Automated local bright feature image analysis of nuclear protein distribution identifies changes in tissue phenotype.
David W Knowles, Damir Sudar, Carol Bator-Kelly, Mina J Bissell, Sophie A Lelièvre

Proc Natl Acad Sci U S A· March 2006

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