Registering Drosophila Embryos at Cellular Resolution to Build a Quantitative 3D Atlas of Gene Expression Patterns and Morphology. - Charless C. Fowlkes; Jitendra Malik; Cris L. Luengo Hendriks; Soile V. E. Keränen; Mark D. Biggin; David W. Knowles; Damir Sudar (CSB Workshops, 2005)

PointCloudXplore: Visual Analysis of 3D Gene Expression Data Using Physical Views and Parallel Coordinates. - Oliver Rübel; Gunther H. Weber; Soile V. E. Keränen; Charless C. Fowlkes; Cris L. Luengo Hendriks; Lisa Simirenko; Nameeta Y. Shah; Michael B. Eisen; Mark D. Biggin; Hans Hagen; Damir Sudar; Jitendra Malik; et al. (EuroVis, 2006)

PointCloudXplore: A Visualization Tool for 3D Gene Expression Data. - Oliver Rübel; Gunther H. Weber; Soile V. E. Keränen; Charless C. Fowlkes; Cris L. Luengo Hendriks; Lisa Simirenko; Nameeta Y. Shah; Michael B. Eisen; Mark D. Biggin; Hans Hagen; Damir Sudar; Jitendra Malik; et al. (VLUDS, 2006)

Large-Scale Turnover of Functional Transcription Factor Binding Sites in Drosophila. - Alan M. Moses; Daniel A. Pollard; David A. Nix; Venky N. Iyer; Xiaoyong Li; Mark D. Biggin; Michael B. Eisen (PLoS Comput. Biol., 2006)

PointCloudXplore 2: Visual Exploration of 3D Gene Expression. - Oliver Rübel; Gunther H. Weber; Min-Yu Huang; E. Wes Bethel; Soile V. E. Keränen; Charless C. Fowlkes; Cris L. Luengo Hendriks; Angela H. DePace; Lisa Simirenko; Michael B. Eisen; Mark D. Biggin; Hans Hagen; et al. (Visualization of Large and Unstructured Data Sets, 2007)

Segmenting Gene Expression Patterns of Early-stage Drosophila Embryos. - Min-Yu Huang; Oliver Rübel; Gunther H. Weber; Cris L. Luengo Hendriks; Mark D. Biggin; Hans Hagen; Bernd Hamann (Visualization in Medicine and Life Sciences, 2008)

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; Soile V. E. Keränen; Cris L. Luengo Hendriks; Hans Hagen; David W. Knowles; Jitendra Malik; Mark D. Biggin; Bernd Hamann (IEEE ACM Trans. Comput. Biol. Bioinform., 2009)

Quantitative visualization of ChIP-chip data by using linked views. - Min-Yu Huang; Gunther H. Weber; Xiaoyong Li; Mark D. Biggin; Bernd Hamann (BIBM Workshops, 2010)

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; Mark D. Biggin; Peter J. Bickel; Claire J. Tomlin (BMC Bioinform., 2010)

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; Estelle Cormier-Michel; Angela H. DePace; Michael B. Eisen; Charless C. Fowlkes; Cameron G. R. Geddes; Hans Hagen; Bernd Hamann; et al. (ICCS, 2010)

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; Charless C. Fowlkes; Cris L. Luengo Hendriks; Soile V. E. Keränen; Michael B. Eisen; David W. Knowles; Jitendra Malik; Hans Hagen; et al. (IEEE ACM Trans. Comput. Biol. Bioinform., 2010)

Visually Relating Gene Expression and in vivo DNA Binding Data. - Min-Yu Huang; Lester W. Mackey; Soile V. E. Keränen; Gunther H. Weber; Michael I. Jordan; David W. Knowles; Mark D. Biggin; Bernd Hamann (BIBM, 2011)

Linking Advanced Visualization and MATLAB for the Analysis of 3D Gene Expression Data. - Oliver Rübel; Soile V. E. Keränen; Mark D. Biggin; David W. Knowles; Gunther H. Weber; Hans Hagen; Bernd Hamann; E. Wes Bethel (Visualization in Medicine and Life Sciences II, 2012)

Volumetric Semantic Segmentation Using Pyramid Context Features. - Jonathan T. Barron; Mark D. Biggin; Pablo Arbeláez; David W. Knowles; Soile V. E. Keränen; Jitendra Malik (ICCV, 2013)