OSU Department of Biomedical Informatics

Kun Huang Ph.D.

Assistant Professor

phone: (614) 292-5607
fax: (614) 688-6600

email:


web: http://bmi.osu.edu/~khuang

mailing address
204 Biomedical Research Tower
460 W. 12th Ave.
Columbus, OH 43210


Kun Huang received Bachelors degrees in Biology and Computer Science from Tsinghua University, Beijing, China, in 1996. From 1996 to 2004, he studied at the University of Illinois at Urbana-Champaign (UIUC), where he obtained Master of Science degrees in Physiology, Electrical Engineering, and mathematics and a Ph.D. degree in Electrical and Computer Science.

Research

Project Involvement

Imaging Informatics

Medical Informatics

Dr. Huang's research interests include computer vision, machine learning, medical imaging, and computational biology. Some of his recent research topics include microscopic image analysis, hybrid system identification with applications in video segmentation, generalized principal component analysis, geometric theories of computer vision, and symmetry-based recognition and matching.

display all

Grant Highlights


display all

Publications

click to hide (-)

Antonio Ruiz, Manuel Ujaldon, Jose Antonio Andrades, Jose Becerra, Kun Huang, Tony C. Pan, Joel H. Saltz, "The GPU on biomedical image processing for color and phenotype analysis", Proceedings IEEE 7th Intl. Symposium on BioInformatics & BioEngineering (BIBE 2007), : pp. 1124-1128, November, 2007.

P. Wenzel, L. Wu, A. de Bruin, J. Chong, W. Chen, G. Dureska, E. Sites, Tony C. Pan, Ashish Sharma, Kun Huang, R. Ridgway, R. Sharp, Raghu Machiraju, Joel H. Saltz, H. Yamamoto, J. Cross, M. Robinson, Gustavo Leone, "Rb Is Critical in a Mammalian Tissue Stem Cell Population", Genes & Development, 21 (1) : pp. 85-97, January, 2007.

R. Sharp, R. Ridgway, P. Wenzel, Tony C. Pan, A. de Bruin, Raghu Machiraju, Kun Huang, Gustavo Leone, Joel H. Saltz, "Volume rendering phenotype differences in mouse placenta microscopy data", Computing in Science & Engineering, Vol. 9 (1) : pp. 38-47, January, 2007.

display all

Presentations

click to hide (-)

Tony C. Pan, Ashish Sharma, Metin N. Gurcan, Kun Huang, Gustavo Leone, Joel H. Saltz, "GridCAD Microscopy: A caBIG Based System for Image Processing and Quantitative Analysis", in Proceedings of APIII, Vancouver, British Columbia, 2006

Kun Huang, "Biomedical Imaging Research in BMI", in Proceedings of BISTI Microscopy Imaging Workshop, 2005

Kun Huang, "Large Scale Microscopy Image Analysis", in Proceedings of 2005

display all

Tech Reports

click to hide (-)

Tony C. Pan, Kun Huang, "Virtual Mouse Placenta: Tissue Layer Segmentation", Technical Report, No. OSUBMI_TR_2005_n07, Biomedical Informatics, 2005.

Tony C. Pan, Raghu Machiraju, Kun Huang, Joel H. Saltz, "Enhanced Registration of Serial Histology Images from Light Microscopy", Technical Report, No. OSUBMI_TR_2005_n05, Biomedical Informatics, 2005.

Kun Huang, Andrew Wagner, Yi Ma, "Hybrid linear system identification via subspace embedding and segmentation", Technical Report, No. OSUBMI_TR_2004_n11, Biomedical Informatics, 2004.


display all

Abstracts

click to hide (-)

Ashish Sharma, Tony C. Pan, Kun Huang, Metin N. Gurcan, Joel H. Saltz, "A Parallel Image Registration Framework for Terabyte-Sized Microscopy Datasets", Archives of Pathology and Laboratory Medicine (APIII 2006), Vancouver, British Columbia, August 2006

Kun Huang, Tony C. Pan, Ashish Sharma, Lee Cooper, Metin N. Gurcan, Joel H. Saltz, "A novel image registration pipeline for 3-D reconstruction from microscopy images", APIII, Vancouver, British Columbia, August 2006

Publications

click to hide (-)

Tony C. Pan, R. Ridgway, R. Sharp, Lee Cooper, Alexandra Gulacy, Ashish Sharma, O. Irfanoglu, Raghu Machiraju, Tahsin M. Kurc, P. Wenzel, A. de Bruin, Gustavo Leone, Joel H. Saltz, Kun Huang, "An Imaging Workflow for Characterizing Phenotypical Change in Terabyte Sized Mouse Model Datasets", Journal of Bioinformatics, April, 2008.

Lee Cooper, R. Sharp, Raghu Machiraju, Kun Huang, Gustavo Leone, "Visualization of Cellular Biology Structures from Optical Microscopy Data", IEEE Transactions in Visualization and Computer Graphics, January, 2008.

Lee Cooper, R. Sharp, Raghu Machiraju, Gustavo Leone, Kun Huang, Joel H. Saltz, "Reconstruction of Cellular Biological Structures from Optical Microscopy Data", IEEE Transactions on Visualization and Computer Graphics, January, 2008.

F. Janoos, O. Irfanoglu, R. Ridgway, Raghu Machiraju, Kun Huang, Joel H. Saltz, Gustavo Leone, M. Ostrowski, "Tensor Classification of N-point Correlation Function features for Histology Tissue Segmentation", Journal of Medical Image Analysis, special issue: Medical Image Analysis with Applications in Biology, January, 2008.

Antonio Ruiz, Manuel Ujaldon, Jose Antonio Andrades, Jose Becerra, Kun Huang, Tony C. Pan, Joel H. Saltz, "The GPU on biomedical image processing for color and phenotype analysis", Proceedings IEEE 7th Intl. Symposium on BioInformatics & BioEngineering (BIBE 2007), : pp. 1124-1128, November, 2007.

Lee Cooper, S. Naidu, Gustavo Leone, Joel H. Saltz, Kun Huang, "Registering high resolution microscopic images with different histochemical stainings - a tool for mapping gene expression with cellular structures", Proceedings of International Workshop on Microscopic Image Analysis with Applications in Biology (MIAAB’07), September, 2007.

F. Janoos, R. Sharp, R. Ridgway, Raghu Machiraju, Kun Huang, P. Wenzel, A. de Bruin, Gustavo Leone, Joel H. Saltz, "Detection and Visualization of Surface-Pockets to Enable Phenotyping Studies", IEEE Transactions on Medical Imaging, Vol. 26 (9) : pp. 1283 - 1290, September, 2007.

F. Janoos, O. Irfanoglu, Raghu Machiraju, Kun Huang, P. Wenzel, A. de Bruin, Gustavo Leone, "Histology Image Segmentation using the N-Point Correlation Functions", Proceedings of International Symposium of Biomedical Imaging (ISBI), April, 2007.

F. Janoos, O. Irfanoglu, Raghu Machiraju, Kun Huang, P. Wenzel, A. de Bruin, Gustavo Leone, "Multi-Resolution Image Segmentation using the 2-Point Correlation Functions", Proceedings of the IEEE International Symposium on Medical Imaging, : pp. 300-303, April, 2007.

R. Sharp, R. Ridgway, P. Wenzel, Tony C. Pan, A. de Bruin, Raghu Machiraju, Kun Huang, Gustavo Leone, Joel H. Saltz, "Volume rendering phenotype differences in mouse placenta microscopy data", Computing in Science & Engineering, Vol. 9 (1) : pp. 38-47, January, 2007.

P. Wenzel, L. Wu, A. de Bruin, J. Chong, W. Chen, G. Dureska, E. Sites, Tony C. Pan, Ashish Sharma, Kun Huang, R. Ridgway, R. Sharp, Raghu Machiraju, Joel H. Saltz, H. Yamamoto, J. Cross, M. Robinson, Gustavo Leone, "Rb Is Critical in a Mammalian Tissue Stem Cell Population", Genes & Development, 21 (1) : pp. 85-97, January, 2007.

F. Jonoos, X Xu, Raghu Machiraju, STC Wong, Kun Huang, "Temporal Matching of Dendritic Spines in Confocal Microscopy Images of Neuronal Tissue", Proceedings of the Microscopic Image Analysis with Applications in Biology (MIAAB), October, 2006.

R. Ridgway, O. Irfanoglu, Raghu Machiraju, Kun Huang, "Image segmentation with tensor-based classification of N-point correlation functions", Proceedings of the Microscopic Image Analysis with Applications in Biology (MIAAB) Workshop in MICCAI, October, 2006.

Lee Cooper, Kun Huang, Ashish Sharma, Tony C. Pan, "Registration VS Reconstruction: Building 3-D Models from 2-D Microscopy Images", Proceedings of Workshop on Multiscale Biological Imaging, Data Mining and Informatics, : pp. 57-58, September, 2006.

Kun Huang, Lee Cooper, Ashish Sharma, Tony C. Pan, "Fast Automatic Registration Algorithm for Large Microscopy Images", Proceedings of the IEEE/NLM Life Science Systems & Applications Workshop, July, 2006.

R. Sharp, R. Ridgway, O. Irfanoglu, P. Wenzel, Raghu Machiraju, A. de Bruin, Gustavo Leone, Kun Huang, Joel H. Saltz, "Examining Phenotype Differences in Mouse Placenta with Volume Rendering and Segmentation", Life Science Systems and Applications Workshop, 2006. IEEE/NLM, : pp. 1-2, July, 2006.

Kun Huang, S. Iyengar, R. Radecki, AM Mahmoud, MD Twa, RG Lembach, CJ Roberts, "Comparison of Corneal Scattering Properties Pre- and Post-LASIK Using Orbscan Images", Proceedings of the 2006 Annual Meeting for Research in Vision and Ophthalmology (ARVO), May, 2006.

Jeffrey Prescott, M. Clary, Gregory J. Wiet, Kun Huang, "Automatic Registration of Large Set of Microscopic Images Using High-level Features", Proceedings of the IEEE International Symposium on Medical Imaging, : pp. 1284-1287, April, 2006.

R. Sharp, R. Ridgway, S. Iyengar, Alexandra Gulacy, P. Wenzel, A. de Bruin, Raghu Machiraju, Kun Huang, Gustavo Leone, Joel H. Saltz, "Registration and 3D Visualization of Large Microscopy Images", Proceedings of the SPIE Annual Medical Imaging Meetings, 6144 : pp. 923-934, February, 2006.

W. Hong, J. Wright, Kun Huang, Y. Ma, "A multi-scale hybrid linear model for lossy image representation", IEEE Transaction on Image Processing, 15 (12) : pp. 3655-3671, January, 2006.

Shannon L. Hastings, Matheus F. Ribeiro, Stephen Langella, Scott Oster, Umit V. Catalyurek, Tony C. Pan, Kun Huang, Renato A. Ferreira, Joel H. Saltz, Tahsin M. Kurc, "XML Database Support for Distributed Execution of Data-Intensive Scientific Workflows", SIGMOD Record, 34 (3) : pp. 50-55, December, 2005.

Matheus F. Ribeiro, Tahsin M. Kurc, Tony C. Pan, Kun Huang, Umit V. Catalyurek, Xi Zhang, Stephen Langella, Shannon L. Hastings, Scott Oster, Renato A. Ferreira, Joel H. Saltz, "Tools For Efficient Subsetting and Pipelined Processing of Large Scale, Distributed Biomedical Image Data", December, 2005.

Kun Huang, Yi Ma, "A Survey on Geometric Vision", December, 2005.

Lee Cooper, Jun Liu, Kun Huang, "Spatial segmentation of temporal texture using mixture linear models", Proceedings of the Dynamical Vision Workshop in the International Conference of Computer Vision, October, 2005.

Wei Hong, Kun Huang, Yi Ma, "A Multi-scale Hybrid Linear Model for Glossy Image Representation", Proceedings of the IEEE International Conference on Computer Vision (ICCV), 1 : pp. 764-771, October, 2005.

Tony C. Pan, Kun Huang, "Virtual Mouse Placenta: Tissue Layer Segmentation", Proceedings of the 27th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC2005), : pp. 3112-3116, September, 2005.

Allen Y. Yang, Kun Huang, Wei Hong, Junshui Ma, "Symmetry-based 3-D Reconstruction from Perspective Images", Computer Vision and Image Understanding (CVIU), 99 (2) : pp. 210-240, August, 2005.

Wei Hong, Allen Y. Yang, Kun Huang, Yi Ma, "On Symmetry and Multiple-View Geometry: Structure, Pose, and Calibration from a Single Image", International Journal of Computer Vision, 60 (3) : pp. 241-265, October, 2004.

Yi Ma, Kun Huang, René Vidal, Jana Košecká, Shankar Sastry, "Rank Conditions on the Multiple-View Matrix", International Journal of Computer Vision, 59 (2) : pp. 115-137, September, 2004.

Kun Huang, Yi Ma, René Vidal, "Minimum effective dimension for mixtures of subspaces: a robust GPCA algorithm and its applications", Proceedings of the 2004 IEEE Computer Society Conference on Computer Vision and Pattern Recognition (CVPR'04), : pp. 631-638, June, 2004.

Kun Huang, Allen Y. Yang, Wei Hong, Yi Ma, "Large-baseline matching and reconstruction from symmetry cells", Proceedings of the IEEE International Conference on Robotics and Automation (ICRA '04), 2 (2) : pp. 1418-1423, April, 2004.

Kun Huang, Robert Fossum, Yi Ma, "Generalized Rank Conditions in Multiple View Geometry with Applications to Dynamical Scenes", Computer Vision - ECCV 2002, 7th European Conference on Computer Vision (ECCV 2002), : pp. 201-216, May, 2002.

Presentations

click to hide (-)

Raghu Machiraju, Kun Huang, Gustavo Leone, "Geometry-driven Visualization of Microscopic Structures in Biology", in Proceedings of Workshop on Knowledge-Assisted Visualization, IEEE Visualization Conference, Sacramento, California, 2007

Kun Huang, Joel H. Saltz, Tony C. Pan, Jose Antonio Andrades, Jose Becerra, Antonio Ruiz, Manuel Ujaldon, "The GPU on biomedical image processing for color and phenotype analysis", in Proceedings of IEEE BIBE 2007, Boston, Massachusetts, 2007

J. Chen, F. Janoos, Raghu Machiraju, W. Xia, X Xu, Kun Huang, "Automated Quantification of Colony Growth in Clonogenic Assays", in Proceedings of 2nd International Workshop on Medical Image Analysis with Applications in Biology (MIAAB), Piscataway, NJ, 2007

Lee Cooper, Kun Huang, Ashish Sharma, Tony C. Pan, A. Trimboli, M. Ostrowski, "Registration vs. Reconstruction: Incorporating Structural Constraint in Building 3-D Models from 2-D Microscopy Images", in Proceedings of Workshop on Multiscale Biological Imaging, Data Mining & Informatics, Santa Barbara, CA, 2006

Tony C. Pan, Ashish Sharma, Metin N. Gurcan, Kun Huang, Gustavo Leone, Joel H. Saltz, "GridCAD Microscopy: A caBIG Based System for Image Processing and Quantitative Analysis", in Proceedings of APIII, Vancouver, British Columbia, 2006

Kun Huang, "Biomedical Imaging Research in BMI", in Proceedings of BISTI Microscopy Imaging Workshop, 2005

Kun Huang, "Large Scale Microscopy Image Analysis", in Proceedings of 2005

Kun Huang, "Generalized Principal Component Analysis and Its Applications", in Proceedings of 2005

Tech Reports

click to hide (-)

Tony C. Pan, Raghu Machiraju, Kun Huang, Joel H. Saltz, "Enhanced Registration of Serial Histology Images from Light Microscopy", Technical Report, No. OSUBMI_TR_2005_n05, Biomedical Informatics, 2005.

Tony C. Pan, Kun Huang, "Virtual Mouse Placenta: Tissue Layer Segmentation", Technical Report, No. OSUBMI_TR_2005_n07, Biomedical Informatics, 2005.

Kun Huang, Andrew Wagner, Yi Ma, "Hybrid linear system identification via subspace embedding and segmentation", Technical Report, No. OSUBMI_TR_2004_n11, Biomedical Informatics, 2004.

Kun Huang, Allen Y. Yang, Yi Ma, "Image representation with hybrid and adaptive linear models", Technical Report, No. OSUBMI_TR_2004_n12, Biomedical Informatics, 2004.

Kun Huang, Yi Ma, "Robust GPCA algorithm with applications in video segmentation via hybrid system identification", Technical Report, No. OSUBMI_TR_2004_n13, Biomedical Informatics, 2004.


Abstracts

click to hide (-)

Kun Huang, Tony C. Pan, Joel H. Saltz, Manuel Ujaldon, Antonio Ruiz, Jose Antonio Andrades, Jose Becerra, "The GPU on biomedical image processing for color and phenotype analysis", IEEE 7th International Conference on BioInformatics & BioEngineering, Boston, Massachusetts, October 2007

Ashish Sharma, Tony C. Pan, Kun Huang, Metin N. Gurcan, Joel H. Saltz, "A Parallel Image Registration Framework for Terabyte-Sized Microscopy Datasets", Archives of Pathology and Laboratory Medicine (APIII 2006), Vancouver, British Columbia, August 2006

Tony C. Pan, Ashish Sharma, Metin N. Gurcan, Kun Huang, Gustavo Leone, Joel H. Saltz, "GridCAD Microscopy: A caBIG-Based System for Image Processing and Quantitative Analysis", Archives of Pathology and Laboratory Medicine (APIII 2006), Vancouver, British Columbia, August 2006

Kun Huang, Tony C. Pan, Ashish Sharma, Lee Cooper, Metin N. Gurcan, Joel H. Saltz, "A novel image registration pipeline for 3-D reconstruction from microscopy images", APIII, Vancouver, British Columbia, August 2006

Tony C. Pan, R. Sharp, R. Ridgway, Kun Huang, Raghu Machiraju, Joel H. Saltz, "Virtual Placenta: Computational Phenotyping Through Image Analysis", Advancing Practice, Instruction, and Innovation Through Informatics (APIII 2005), Lake Tahoe, California, August 2005

[edit this page]