Publications

1. 1.Cemal Cagatay Bilgin, Jens Rittscher, Bob Filkins, Ali Can. "Digitally Adjusting Chromogenic Dye Proportions in Pathology Images". Journal of Microscopy, 2011.
   

2. 2.Lindsey McKeen, Kira Henderson, Basak Oztan, Cemal Cagatay Bilgin, Bulent Yener, George Plopper. "Quantitative metric profiles capture three-dimensional temporo-spatial architecture to discriminate cellular functional states". BMC Medical Imaging, April, 2011.
   

3. 3.Cemal Cagatay Bilgin, Amanda Lund, Ali Can, George Plopper, Bulent Yener. "Modeling of 3D Stem-Cell Mediated Collagen Fibrillogenesis". PLoS ONE 5(9):e12783, 2010.
   

4. 4.Amanda Lund, Cemal Cagatay Bilgin, Mohammad Al Hasan, Lindsey McKeen, Jan Stegemann, Bulent Yener, Mohammad Zaki and George Plopper. "Quantification of Spatial Parameters in 3D Cellular Constructs Using Graph Theory". Journal of Biomedicine and Biotechnology, 928286, 2009.
   

5. 5.Cemal Cagatay Bilgin, Peter Bullough, George E. Plopper Bulent Yener. "ECM-Aware Cell-Graph Mining for Bone Tissue Modeling and Classification". Journal of Data Mining and Knowledge Discovery, 20:416-438, 2009.
   

6. 6.Mert Akdere, Cemal Cagatay Bilgin, Ozan Gerdaneri, Ibrahim Korpeoglu, Ozgur Ulusoy, Ugur Cetintemel. "A Comparison of Epidemic Algorithms in Wireless Sensor Networks", Elsevier Computer Communications, 29(13-14): 2450-2457 2006.
   

In Submission/Preparation

1. 1.Cemal Cagatay Bilgin, Shayoni Ray, William Daley, Banu Baydil, Bulent Yener, Melinda Larsen. "Multiscale Feature Analysis of Branching Morphogenesis". In submission, 2010.
   

2. 2.Cemal Cagatay Bilgin, Bulent Yener. "Dynamic Network Evolution: Models, Clustering, Anomaly Detection: A systematic Survey". In submission, 2010.
   

3. 3.Cemal Cagatay Bilgin, Kira Henderson, George Plopper, Bulent Yener. "Quantification of Actin Filaments in 3D Cell Constructs". In submission, 2011.
   

Patents

1. 1.Ali Can, Cemal Cagatay Bilgin, Jens Rittscher, Bob Filkins. Methods and Systems for Digitally Enhancing an Image of a Stained Material
   

Conference Contributions

1. 1.Basak Oztan, Lindsey M. Polizzotti, Cemal Cagatay Bilgin, Kira M. Henderson, George E. Plopper, Bulent Yener. "Classification of Breast Cancer Grades through Quantitative Characterization of Ductal Structure Morphology in Three-Dimensional Cultures". ACM BCB August 1-3, 2011, Chicago, USA.
   

2. 2.Cemal Cagatay Bilgin, Shayoni Ray, William Daley, Banu Baydil, Sharon Sequeira, Bulent Yener, Melinda Larsen. "Cell-Graph Modeling of Salivary Gland Morphology." ISBI April 14-18 2010, Rotterdam, Netherlands.
   

3. 3.Cemal Cagatay Bilgin, Cigdem Gunduz, Chandandeep Nagi, Bulent Yener. "Cell-Graph Mining for Breast Tissue Modelling and Classification". Engineering in Medicine and Biology Society, 2007. 29th Annual International Conference of the IEEE.
   

Workshops and Abstracts

1. 1.Cemal Cagatay Bilgin, Shayoni Ray, William Daley, Banu Baydil, Sharon Sequeira, Bulent Yener, Melinda Larsen. "Quantification of Changes in Salivary Gland Morphology Using Cell Graphs (129302)." 39th Annual Meeting of the American Association for Dental Research, Washington, DC March 3-6, 2010.
   

2. 2.K. Henderson, Cemal Cagatay Bilgin, B. Yener, G. Plopper. "Signal Transduction Mediates the Remodeling of the Stem Cell Microenvironment (449 B396)." 49th American Society for Cell Biology Annual Meeting December 5-9, 2009, San Diego, CA, USA.
   

3. 3.L. McKeen, Cemal Cagatay Bilgin, G. Plopper, B. Yener. "Investigation of Structure- Function Relationships of Breast Cancer's Metastatic Potential (2007 B386). " 49th American Society for Cell Biology Annual Meeting December 5-9, 2009, San Diego, CA, USA.
   

4. 4.C. Aksay, A. Ayaz, O. Babur, C. Bilgin, A. Cetintas, A. Civril et al " PATIKA: An informatics infrastructure for cellular networks", ISMB 2004, Glasgow, Scotland, July 31-August 4.