Dr. Murat Dundar
Associate Professor
Computer & Information Science Dept.

 

By Date

By Type

Journal

Bartek Rajwa, Paul Wallace, Elizabeth Griffiths, Murat Dundar, “Automated Assessment of Disease Progression in Acute Myeloid Leukemia by Probabilistic Analysis of Flow Cytometry Data,” IEEE Transactions on Biomedical Engineering. Hard copy to appear, electronic copy published in July 2016. Online

Renata Duchnowska et al., "Predicting early brain metastases based on clinicopathological factors and gene expression analysis in advanced HER2-positive breast cancer patients," Journal of Neuro-Oncology 2015. Online

Xiaofan Zhang, Wei Liu, Murat Dundar, Sunil Badve, Shaoting Zhang "Large-Scale Histopathological Image Analysis: Hashing-Based Image Retrieval," to appear in IEEE Transactions on Medical Imaging.

Murat Dundar, Ferit Akova, Halid Z. Yerebakan, Bartek Rajwa, "A Non-parametric Bayesian Model for Joint Cell Clustering and Cluster Matching: Identification of Anomalous Sample Phenotypes with Random Effects," BMC Bioinformatics 15 (1), 314, 2014. Online

Mukesh Bansal et al., "Predicting activity of drug combinations through crowdsourcing," to appear in Nature Biotechnology, 2014.

James C. Costello et al., "A community effort to assess and improve drug sensitivity prediction algorithms," Nature Biotechnology, 2014. Online

Atul K Singh, Amanda M Bettasso, Euiwon Bae, Bartek Rajwa, Murat Dundar, Mark D Forster, Lixia Liu, Brent Barrett, Judith Lovchik, J Paul Robinson, E Daniel Hirleman, Arun K Bhunia, "Laser Optical Sensor, a Label-Free On-Plate Salmonella enterica Colony Detection Tool," mBio 5(1), 2014. Online

J. Paul Robinson, Bartek P. Rajwa, Euiwon Bae, Valery Patsekin, Ali Roumani, Arun K. Bhunia, J. Eric Dietz, V. Jo Davisson, Murat Dundar, John Thomas, and E. Daniel Hirleman, "Using Scattering to Identify Bacterial Pathogens," Optics & Photonics News 22(10), 20-27, 2011. PDF

Murat Dundar, Sunil Badve, Gokhan Bilgin, Vikas Raykar, Olcay Sertel, Metin N. Gurcan, “Computerized Classification of Intraductal Breast Lesions using Histopathological Images”, IEEE Transactions on Biomedical Engineering, 58(7):1977-1984, 2011. PDF

Bartek Rajwa, Murat Dundar, Ferit Akova, Amanda Betasso, Valery Patsekin, E. Dan Hirleman, Arun K. Bhunia, J. Paul Robinson, “Discovering unknown: detection of emerging pathogens using label-free light scattering system,” Cytometry Part A, 77A(12):1103–1112, 2010. PDF

Ferit Akova, Murat Dundar, V. Jo Davisson, E. Daniel Hirleman, Arun K. Bhunia, J. Paul Robinson, Bartek Rajwa, “A Machine-learning Approach for Label-free Detection of Unmatched Bacterial Serovars”, Statistical Analysis and Data Mining Journal, 3(5):289-301, 2010. PDF

Murat Dundar, Glenn Fung, Balaji Krishnapuram, Bharat Rao, “Multiple Instance Learning Algorithms for Computer Aided Diagnosis”, IEEE Transactions on Biomedical Engineering, Volume 55, No. 3, pp 1005-1015, March 2008. PDF

Luca Bogoni, Pascal Cathier, Murat Dundar, Anna Jerebko, Sarang Lakare, Jianming Liang, Senthil Periaswamy, M.Baker and M.Macari, "CAD for Colonography: A tool to address a growing need," The British Journal of Radiology, 78:57-62, 2005. PDF

Murat Dundar and David Landgrebe, "A Cost-effective Semi-supervised Classifier Approach with Kernels," IEEE Transactions on Geoscience and Remote Sensing, 42(1):264-270, 2004. PDF

Murat Dundar and David Landgrebe, "Toward an Optimal Supervised Classifier for the Analysis of Hyperspectral Data," IEEE Transactions on Geoscience and Remote Sensing, 42(1):271-277, 2004. PDF

Murat Dundar and David Landgrebe, "A Model Based Mixture Supervised Classification Approach in Hyperspectral Data Analysis," IEEE Transactions on Geoscience and Remote Sensing, 40(11):2692-2699, 2002. PDF

Conference

Xun Wu, Jean Sanders, Murat Dundar, and Ömer Oralkan, “Multi-wavelength photoacoustic imaging for monitoring lesion formation during high-intensity focused ultrasound therapy,” in Proc. SPIE 10064, Photons Plus Ultrasound: Imaging and Sensing 2017, Feb. 2017.

Baichuan Zhang, Murat Dundar, Muhammed Hasan, “Bayesian Non-Exhaustive Classification A Case Study: Online Name Disambiguation using Temporal Record Streams,” in Proceedings of ACM CIKM, Indianapolis, US, Oct 2016.

Murat Dundar, Bethany Ehlmann, “Rare Jarosite Detection in CRISM Imagery by Non-Parametric Bayesian Clustering,” in Proceedings of IEEE WHISPERS'16, Los Angeles, US, Aug 2016. PDF

Murat Dundar, Qiang Kou, Baichuan Zhang, Yicheng He, Bartek Rajwa, “Simplicity of Kmeans versus Deepness of Deep Learning: A Case of Unsupervised Feature Learning with Limited Data,” In Proceedings of IEEE International Conference on Machine Learning Applications, Miami, FL, USA, December 11-13, 2015. PDF

Bethany Ehlmann and Murat Dundar, “Are Noachian/Hesperian Acidic Waters Key to Generating Mars' Regional-scale Aluminum Phyllosilicates? The Importance of Jarosite Co-occurrences with Al-Phyllosilicate Units,” Lunar and Planetary Science Conference, The Woodlands, TX, March 16-20, 2015 (oral presentation).

Halid Z. Yerebakan, Bartek Rajwa, Murat Dundar, "The Infinite Mixture of Infinite Gaussian Mixtures," Advances in Neural Information Processing Systems (NIPS'14), Montreal, Canada, December 8-13, 2014. PDF

Murat Dundar, Halid Z. Yerebakan, Bartek Rajwa, "Batch Discovery of Recurring Rare Classes toward Identifying Anomalous Samples," In Proceedings of the 20th Annual SIGKDD International Conference on Knowledge Discovery and Data Mining (SIGKDD'14), New York, USA, Aug 24-27 2014. (acceptance rate: 15%) PDF Video Lecture

Murat Dundar, Bartek Rajwa, Lin Li, “Partially-observed Models for Classifying Minerals on Mars,” In Proceedings of WHISPERS'13, Gainesville, FL, June 25-28, 2013. PDF

Ferit Akova, Yuan Qi, Bartek Rajwa, Murat Dundar, “Self-adjusting Models for Semi-supervised Learning in Partially-observed Settings,” In Proceedings of the IEEE International Conference on Data Mining (ICDM’12), Brussels, Belgium, December 10-13, 2012. (Full paper, acceptance rate: 11%) PDF SLIDES

Murat Dundar, Ferit Akova, Yuan Qi, Bartek Rajwa, “Bayesian Nonexhaustive Learning for Online Discovery and Modeling of Emerging Classes,” In John Langford and Joelle Pineau (Eds.), Proceedings of the 29th International Conference on Machine Learning (ICML'12), Edinburgh, Scotland, June 26-July 1, 2012 (pp. 113-120). Omnipress, 2012. PDF

J. Paul Robinson, Bartek P. Rajwa, Murat Dundar, Euiwon Bae, Valery Patsekin, E. Daniel Hirleman, Ali Roumani, Arun K. Bhunia, J. Eric Dietz, V. Jo Davisson, John G. Thomas, "A distributed national network for label-free rapid identification of emerging pathogens", Proceedings of SPIE, 8018, June 2011.

Bartek Rajwa, Murat Dundar, Ferit Akova, Valery Patsekin, Euiwon Bae, Yanjie Tang, J. Eric Dietz, E. Daniel Hirleman, J. Paul Robinson, Arun K. Bhunia, "Digital microbiology: detection and classification of unknown bacterial pathogens using a label-free laser light scatter-sensing system", Proceedings of SPIE, 8029, May 2011.

Murat Dundar, Sunil Badve, Vikas Raykar, Rohit Jain, Olcay Sertel, Metin Gurcan, “A Multiple Instance Learning Approach toward Optimal Classification of Pathology Slides”, In Proceedings of 20th International Conference on Pattern Recognition, Istanbul, Turkey, August 23-26, 2010 (pp. 2732-2735). (Best scientific paper in Biomedical and Bioinformatics applications) PDF

Murat Dundar, “Target Detection with Spatio-Spectral Data via Concordance Learning”, In Proceedings of the IEEE International Geoscience and Remote Sensing Symposium (IGARSS’09), Cape Town, South Africa, July 10-14, 2009. PDF

Murat Dundar, Daniel Hirleman, Arun K. Bhunia, J. Paul Robinson, and Bartek Rajwa, “Learning with a Nonexhaustive Training Dataset. A Case Study: Detection of Bacteria Cultures using Optical-Scattering Technology”, In Proceedings of the 15th Annual SIGKDD International Conference on Knowledge Discovery and Data Mining (SIGKDD'09), Paris, France, June 28-July 1 2009, (pp. 279-288). New York, NY, USA, ACM 2009. (Full paper, acceptance rate: 10%) PDF

Bartek Rajwa, Murat Dundar, Valeri Patsekin, Karleigh Huff, Arun Bhunia, Murugesan Venkatapathi, Euiwon Bae, E. Daniel Hirleman, and J. Paul Robinson. Morphotypic analysis and classification of bacteria and bacterial colonies using laser light-scattering, pattern recognition, and machine-learning system. In Craig S. Halvorson, SÚárka O. Southern, B. Vijaya K. V. Kumar, Salil Prabhakar, and Arun A. Ross (Eds.), SPIE Proceedings on Optics and Photonics in Global Homeland Security V and Biometric Technology for Human Identification VI, volume 7306, 2009.

Le Lu, Matthias Wolf, Jianming Liang, Murat Dundar, Jinbo Bi and Marcos Salganicoff, "A Two-level Approach Towards Semantic Colon Segmentation: Removing Extra-colonic Findings", In Proceedings of the 12th International Conference on Medical Image Computing and Computer Assisted Intervention, September 20-24, 2009, London, UK.

Murat Dundar, Matthias Wolf, Sarang Lakare, Marcos Salganicoff, Vikas Raykar “Polyhedral Classifiers for Target Detection: A Case Study: Colorectal Cancer”, In Proceedings of the 25th International Conference on Machine Learning (ICML 2008), pp.288-295, Helsinki, July 2008. PDF

Vikas C. Raykar, Balaji Krishnapuram, Jinbo Bi, Murat Dundar, and R. Bharat Rao, “Bayesian Multiple Instance Learning: Automatic Feature Selection and Inductive Transfer” , In Proceedings of the 25th International Conference on Machine Learning (ICML 2008), pp.808 - 815, Helsinki, July 2008. PDF

Murat Dundar, Glenn Fung, Balaji Krishnapuram, Bharat Rao, “Multiple Instance Learning Algorithms for Computer Aided Diagnosis”, IEEE Transactions on Biomedical Engineering, Volume 55, No. 3, pp 1005-1015, March 2008. PDF

Jinbo Bi, Tao Xiong, Shipeng Yu, Murat Dundar, Bharat Rao, “An Improved Multi-task Learning Approach with Applications in Medical Diagnosis”, In Walter Daelemans, Bart Goethals, and Katharina Morik (Eds.), Proceedings of the 18th European Conference on Machine Learning (ECML’08), Antwerp, Belgium, September 15-18, 2008 (pp. 117-132). Springer, 2008. PDF

Murat Dundar, Jinbo Bi, “Joint optimization of cascaded classifiers for computer aided detection”, In Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition (CVPR ‘07), Minneapolis, Minnesota, USA, 18-23 June 2007. IEEE Computer Society 2007. (Oral paper, acceptance rate: 5%) PDF

Murat Dundar, Balaji Krishnapuram, Jinbo Bi, Bharat Rao, “Learning from Non-IID Data”, In Proceedings of the 20th International Joint Conference on Artificial Intelligence (IJCAI 2007), Hyderabad, India, January 6-12, 2007. PDF

Matthias Wolf, P. Cathier, Sarang Lakare, Murat Dundar, and Luca Bogoni, "Efficient detection of polyps in CT colonography", Proceedings of SPIE, 6514, 651408, 2007.

Glenn Fung, Murat Dundar, Balaji Krishnapuram, Bharat Rao, “Multiple Instance Algorithms for Computer Aided Diagnosis”, Advances in Neural Information Processing Systems 19 (NIPS 2006), Vancouver, CA, 2006. PDF

Jinbo Bi, Glenn Fung, Murat Dundar, Bharat Rao, “Semi-Supervised Mixture of Kernels via LPBoost Methods”, In Proceedings of the Fifth IEEE international Conference on Data Mining (ICDM ’05), November 27 - 30, 2005, Washington, DC (pp. 569-572). PDF

Murat Dundar, Glenn Fung, Jinbo Bi, Sandilya Sathyakama, Bharat Rao, “Sparse Fisher Discriminant Analysis for Computer Aided Detection”, In Proceedings of the SIAM International Conference of Data Mining (SDM ’05), Newport Beach, CA, USA, 2005. PDF

Matthias Wolf, A. Krishnan, Marcos Salganicoff, J. Bi, Murat Dundar, G. Fung, J. Stoeckel, S. Periaswamy, H. Shen, P. Herzog, D. P. Naidich, “CAD Performance Analysis for Pulmonary Nodule Detection on Thin-slice MDCT Scans DOC”, In Proceedings of the 19th International Congress and Exhibition on Computer Assisted Radiology and Surgery (CARS ‘05), Berlin, Germany, June 22 - 25, 1281:1104-1108, 2005. PDF

Glenn Fung, Murat Dundar, Jinbo Bi, and R. Bharat Rao, “A fast iterative algorithm for fisher discriminant using heterogeneous kernels” In Carla E. Brodley (Ed.), Proceedings of the Twenty-First international Conference on Machine Learning (ICML '04), Banff, Alberta, Canada, July 04 - 08, 2004, vol. 69. New York, NY, ACM Press, 2004.

Murat Dundar, Glenn Fung, Luca Bogoni, Michael Macari, A. Megibow, Bharat Rao, “A Methodology for Training and Validating a CAD System and Potential Pitfalls,” In Heinz U. Lemke, Kiyonari Inamura, Kunio Doi, Michael W. Vannier, Allan G. Farman, Johan H. C. Reiber (Eds.), Proceedings of the 18th International Congress and Exhibition on Computer Assisted Radiology and Surgery (CARS 04), Chicago, USA, June 23-26, 2004 (pp. 1010-1014). Elsevier, 2004. PDF

Pascal Cathier , Senthil Periaswamy, Anna Jerebko, Murat Dundar, Jianming.Liang, Glenn Fung, Jonathan Stoeckel, Tumuluri Venkata, Rajesh Amara, Arun Krishnan, Bharat Rao, Alok.Gupta, E.Vega, S.Laks, A.Megibow, Michael Macari, and Luco Bogoni, “CAD for Polyp Detection: an Invaluable Tool to Meet the Increasing Need for Colon-Cancer Screening”, In Heinz U. Lemke, Kiyonari Inamura, Kunio Doi, Michael W. Vannier, Allan G. Farman, Johan H. C. Reiber (Eds.), Proceedings of the 18th International Congress and Exhibition on Computer Assisted Radiology and Surgery (CARS 04), Chicago, USA, June 23-26, 2004 (pp. 978-982). Elsevier, 2004. PDF

Book Chapter

Murat Dundar and Glenn Fung, “Kernel Fisher Discriminant for Hyperspectral Data Analysis”, In Gustavo Camps-Valls and Lorenzo Bruzzone (Eds.), Kernel Methods for Remote Sensing Data Analysis (pp. 111-123) John Wiley & Sons, 2009. PDF

Workshop

Glenn Fung, Balaji Krishnapuram, Jinbo Bi, Murat Dundar, Vikas Raykar, Shipeng Yu, Romer Rosales, Sriram Krishnan, R. Bharat Rao, “Mining Medical Images”, Third Workshop on Data Mining Case Studies and Practice Prize, 15th Annual SIGKDD International Conference on Knowledge Discovery and Data Mining, June 28-July 1 2009, Paris, France (First place winner). PDF

Murat Dundar, Matthias Wolf, Sarang Lakare, and Marcos Salganicoff, "Training a CAD Classifier with Different Polyp Morphologies for Virtual Colonoscopy", MICCAI 2008 Workshop on Computational and Visualization Challenges in the New Era of Virtual Colonoscopy, September 2008. PDF