Selected Publications:

Efficient synthesis of fluorescent rosamines: multifunctional platforms for cellular imaging
Tetrahedron Letters, 2014
Automated histology analysis: opportunities for signal processing
IEEE Signal Processing, 2014
Stress signaling from human mammary epithelial cells contributes to phenotypes of mammographic density
Cancer Research, 2014
Classification of histology sections via multispectral convolutional sparse coding
CVPR, 2014
Molecular deconstruction, detection, and computational prediction of microenvironment-modulated cellular responses to cancer therapeutics
Drug Discovery Reviews, 2014
Stacked predictive sparse coding for classification of distinct regions in tumor histopathology
ICCV, 2013
Characterization of tissue histopathology via predictive sparse decomposition and spatial pyramid matching
MICCAI, 2013
Integrated profiling of three dimensional cell culture models and 3D microscopy
Bioinformatics, 2013
Classification of tumor histology via morphometric context (in press)
IEEE Computer Vision and Pattern Recognition, 2013
Classification of tumor histopathology via sparse feature learning
ISBI, 2013
Invariant delineation of nuclear architecture in Glioblastoma multiforme for clinical and molecular association
IEEE Transactions on Medical Imaging, 2013
Multireference level set for the characterization of nuclear morphology in Glioblastoma Multiforme
IEEE Transactions on Biomedical Engineering, 2012
Inference of causal networks from time-varying transcriptome data via sparse coding
PLoS One, 2012
Multireference level set for the characterization of nulcear morphology in glioblastoma multiforme
IEEE Transactions on Biomedical Engineering, 2012
Automatic segmentation and quantification of filamentous structures in electron microscopy
ACM Bioinformatics, Computational Biology and Biomedicine, 2012
A molecular method for the delivery of small molecules and proteins across the cell wall of algae using molecular transporters
Proceedings of National Academy of Science, 2012
CD36 repression activates a multicellular stromal program shared by high mammographic density and tumor tissues
Cancer Discovery, 2012
Learning invariant features of tumor signature with independent subspace analysis
IEEE ISBI, 2012
Batch-invariant nuclear segmentation in whole mount histology sections
IEEE ISBI, 2012
Molecular basis of morphometric composition in Glioblastoma Multiforme
IEEE ISBI, 2012
Identification of fluorescence compounds with non-specific binding property via high throughput live cell microscopy
PLoS One, 2012
Morphometric analysis of TCGA glioblastoma multiforme
BMC Bioinformatics, 2011
Iterative tensor voting for perceptual grouping of ill-defined curvilinear structures
IEEE Transactions on Medical Imaging 2011
Comparison of sparse coding and kernel methods for histopathological classification of glioblastoma multiforme
IEEE ISBI 2011
Prediction of epigenetically regulated genes in breast cancer cell lines
BMC Bioinformatics, 2010
Multiscale iterative voting for differential analysis of stress response for 2D and 3D culture models
Journal of Microscopy, 2011
Sparse Multitask Regression for Identifying Common Mechanism of Response to Therapeutic Targets
Bioinformatics, 2010
Prediction of epigenetically regulated genes in breast cancer cell lines
BMC Bioinformatics, 2010
Multiphase Level Set for Automated Delineation of Membrane-bound Macromolecules
IEEE Int. Symp. on Biomedical Imaging-from nano to macro, 2010
Chemical Profiling of the Plant Cell Wall through Raman Spectroscopy
IEEE Int. Symp. on Biomedical Imaging-from nano to macro, 2010
Molecular Predictors of 3D Morphogenesis by Breast Cancer Cells in 3D Culture
PLoS Computational Biology, 2010
Multidimensional Profiling of Cell Surface Proteins and Nuclear Markers
IEEE Transactions on Computational Biology and Bioinformatics, 2010
Morphometric Subtyping for a Panel of Breast Cancer Cell Lines
IEEE Int. Symp. on Biomedical Imaging-from nano to macro, 2009
Structural Annotation of EM Images by Graph Cut
IEEE Int. Symp. on Biomedical Imaging-from nano to macro, 2009
A Delunay Triangulation Approach for Segmenting Clumps of Nuclei
IEEE Int. Symp. on Biomedical Imaging-from nano to macro, 2009
Tunable Tensor Voting Improves Grouping of Membrane-bound Macromolecules
Mathematical Methods in Biomedical Image Analysis, 2009
Prototype Vector Machine for Large Scale Semi-Supervised Learning
International Conf. on Machine Learning,2009
Graphical Methods for Quantifying Macromolecules through Bright Field Imaging
Bioinformatics, 2008
A Bayesian Approach for Image Segmentation with Shape Priors
IEEE Computer Vision and Pattern Recognition, 2008
Integrated profiling of cell surface protein and nuclear marker for discriminant analysis
IEEE Int. Symposium on Biomedical Imaging: from nano to macro, 2008
Fluorinated analog of malachite green: synthesis and toxicity
Molecules, 2008
Modeling of Front Evolution with Graph Cut Optimization
IEEE Int. Conference on Image Processing, 2007
Segmentation of Heterogeneous Blob Objects through Voting and Level Set Formulation
Pattern Recognition Letters, 2007
Perceptual Grouping of Membrane Signals in Cell-based Assays
IEEE Int. Symp. on Biomedical Imaging, 2007
Quantitative Representation of Three-Dimensional Cell Culture Models
IEEE Int. Symp. on Biomedical Imaging, 2007
Segmentation of Mammosphere Structures from Volumetric Data
IEEE Int. Symp. on Biomedical Imaging, 2007
Spectral Decomposition of Signaling Networks
IEEE Symposium on Computational Intelligence in Bioinformatics and Computational Biology 2007
Iterative Voting for Inference of Structural Saliency and Characteriztion of Subcellular Events
IEEE Transactions on Image Processing, March 2007
3D Segmentation of Mammospheres for Localization Studies
Int. Symp. on Visual Computing, 2006
Geometric approach to segmentation and protein localization in cell cultured assays
Int. Symp. on Visual Computing, 2005
Integrated Imaging Informatics--Computational Systems Biology (Edited)
Elsevier, 2005
Localization of Symmetries through Iterative Voting
Int. Conference on Pattern Recognition, 2004
Shape Metamorphism using infinite Laplacian Equation
Int. Conference on Pattern Recognition, 2004
Perceptual Organization of Radial Symmetries
IEEE Conf. on Computer Vision and Pattern Recognition, 2004
BioSig: An Imaging Bioinformatics System for Phenotypic Studies
IEEE Transactions on Systems, Man, Cybernetics, Oct. 2003
High-Resolution Reconstruction of Sparse Data from Dense Low-Resolution Spatio-Temporal Data
IEEE Transactions on Image Processing, April 2003
Web Intelligence: Web-based BISC Decision Support System
Computational Web Intelligence: Intelligent Technology for Web Applications--Book Chapter, 2003.
Harmonic Cut and Regularized Centroid Transform for Localization of Subceullar Structure
IEEE Transactions on Biomedical Engineeing, April 2003
BioSig: An Imaging and Informatic Framework for Representing the Physiological Responses of Living Cells
Biosilico, March 2003
BioSig: An Imaging and Informatic System for Studying Phenomics
IEEE Computers, July 2002.
Harmonic Cut and Regularized Centroid Transform for Localization of Subceullar Structure
International Conference on Pattern Recognition, Aug. 2002.
CHEF:Convex Hull of Elliptic Features for 3D Blob Detection
International Conference on Pattern Recognition, Aug. 2002.
Robust and Efficient Surface Reconstruction from Contours,
Visual Computers, May 2001.
Detection of Vortices and Saddle Points in SST Data
Journal of Geophysical Research Letters, January 2001.
BioSig: A Bioinformatic System for Studying the Mechanism of Inter-cell Signaling
IEEE Int. Symp. on Bioinformatic and BiomedicalEngineering, Nov. 2000
Feature Based Visualization of Geophysical Data,
IEEE Conf. on Computer Vision and Pattern Recognition, 2000.
Shape Recovery from Equal Thickness Contours,
IEEE Transactions on Pattern Analysis and Machine Intelligence, Aug. 2000.
A New Regularized Approach for Contour Morphing
IEEE Conf. on Computer Vision and Pattern Recognition, 2000.
An Algebraic Solution to Surface Recovery from Cross-sectional Contours
Journal of Graphical Models and Image Processing, July 1999.
DeepView: A Channel for Distributed Microscopy and Informatics
IEEE Conf. on High Performance Computing and Networking , Nov. 1999.
Model Based Segmentation of Nuclei
IEEE Conference on Computer Vision and Pattern Recognition, , June 1999.
Journal of Pattern Recognition, 2000 
Surface Reconstruction from Sparse Fringe Contours
IEEE Workshop on Applications of Computer Vision , Oct. 1998.
Shape from Interfernce Patterns
Int. Conf. on Pattern Recognition , Aug. 1998.
Shape from Equal Thickness Contours
IEEE Conf. on Computer Vision and Pattern Recognition , June 1998. 
IEEE Trans. on Pattern Analysis and Machine Intelligence, 2000. 
Active Calibration and Tracking in Video Streams
LBNL Internal Report , Feb. 1998.
Visual Servoing for Online Facilities
IEEE Computer , July 1997.
 Visual Servoing for Micro Manipulation
International Conference on Pattern Recognition, August. 1996.
Telepresence for In-situ Microscopy
IEEE International Conference on Multimedia Systems and Computers, June. 1996.
Invariant Representation and Hierarchical Classification of Fruits from X-ray Images
Int. Journal of Imaging System, 1996. 
Invariant Representation and Hierarchical Network for Inspection of Nuts from X-ray Images
IEEE Int. Conference on Neural Networks, Nov. 1995. 
Tracking of Convex Objects
IEEE Int. Syposium on Computer Vision, Nov. 1995. 
Tracking of Tubular Molecules for Scientific Applications
IEEE Transaction on Pattern Analysis and Machine Intelligence, Aug. 1995. 
Tracking of Tubular Objects for Scientific Applications
IEEE Conf. on Computer Vision and Pattern Recognition, June 1994. 
Visualization of Volumetric Structures from MR Images of the Brain
AAAI Symp. on Application of Computer Vision to Medical Imaging, March 1994. 
Pinta: A system for Visualizing Anatomical Structures of the Brain from MR Images
IEEE Conference on Computer Vision and Pattern Recognition, June 1993.