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RESEARCH INTERESTS
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Medical Image Analysis
3D segmentation
3D nonrigid registration
Computer aided diagnosis
Content-based image retrieval
Virtual
Reality in Medicine
Bioinformatics
Medical informatics, PACS
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TEACHING
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IS 566 Image Processing Algorithms
MIN
524 Fundamentals of Medical
Imaging
ION 523
Data Mining
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EDUCATION
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Ph.D, EE, University of Southern
California, USA, 1994
(on Medical
Imaging)
MS, EE, Bilkent
University, Ankara, 1990
(on System
Theory and Control)
BS, EE, Middle
East Technical University,Ankara, 1987
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AWARDS
and
DEGREES
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1997
Research Associate, USC Biomedical Engineering Dept.
1995-1996 Post-Doc Fellowship, UCLA, Crump Inst. for Biological Imaging
1994
1st prize in the Young Investigator Award competition
in Computer and Instrumentation, SNM
1991-1994 Graduate Scholarship, USC
1990-1991 1990-1991 Graduate
Scholarship,
Education Ministry of Turkey
1987-1990 Assistantship, Bilkent University, Turkey
1983-1987 Undergraduate Scholarship, TÜBITAK, Turkey
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THESIS SUPERVISED
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Ahmet Erdem, PhD (2009?), Automatic
feature identification in medical images
Hakan Ertem, MSc (2008?), on Medical image
segmentation
Umut Kocak, MSc (2007), Haptic Rendering in Dental
Education Simulation (co-supervised with Ilhan Konukseven)
Emre Kale, MSc (2008?): Image segmentation of
multi-modality 3D medical
images (co-supervised with
Ilhan Konukseven)
Hasan Oğul, PhD (2006), COMPUTATIONAL
REPRESENTATION OF PROTEIN SEQUENCES FOR HOMOLOGY DETECTION AND
CLASSIFICATION
Koray Orhun, MSc (2004), Interactive Volume Rendering for
Medical Images
Emre Kösen, MSc (2004), Design and implementation of a
mobile patient data collection and transmission system for an emergency
ambulance
Erhan Ergüt, MSc (2003), Analysis of microarray images
using FCM and k-means clustering algorithms (co-supervised with Yasamin
Yardimcı)
Birsen Gülden, MSc (2003), GIS application for Ambulance
Routing Services: A Prototype (co-supervised with Nazife Baykal)
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FUNDED PROJECTS
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TUBITAK 1001, “Diş
Hekimliği Eğitim Simülatörü (DiHES) Geliştirilmesi”, 2005-2008, Araştırmacı
TUBITAK 1001, “Farklı
görüntüleme tekniklerinin birleştirilmesi ile kişiye özel sert ve yumuşak
doku ile kişinin dış görünümünü içeren 3B kafa modellenmesi ve bu modelin
3B görselleştirilmesi”, 2006-2008, Araştırmacı
DPT-YUUP, “E-devlet için bilgisayar
destekli görsel dökümantasyon, arşiv ve yönetim sistemi gerçekleştirilmesi”, 2004-2005, Araştırmacı ve
Sağlık kısmı sorumlusu.
BAP, “3D medical image
processing and visualization of brain images”, 2002-2005, Proje Yöneticisi.
BAP, “Design and implementation
of a portable and easy-to-use patient data acquisition and
telecommunication system for emergency care”, 2002-2004, Proje Yöneticisi.
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JOURNAL PAPERS
and
PATENTS
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- LOFTMAN RC, MORGAN KE, MUMCUOGLU E,
USTUNER KF, BANJANIN Z (05.19.2005), Transmit Based Axial Whitening,
US Patent no: US2005107699
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- Oğul, H., Mumcuoğlu EÜ (2007) A
discriminative method for remote homology detection based on n-peptide
compositions with reduced amino acid alphabets, BioSystems,
January, 87 (1), pp.75-81.
- H.Ogul, E.Mumcuoglu, (2007), Subcellular
Localization Prediction with New Protein Encoding Schemes, IEEE/ACM
Transactions on Computational Biology and Bioinformatics
(accepted for publication).
- Mumcuoğlu EÜ, Nar F,
Yardımcı Y, Koçak U, Ergün EL, Volkan Salancı B, Uğur O, Erbaş B
(2006) Simultaneous Surface Registration of Ictal, Interictal SPECT
and MR Images for Epilepsy Studies, Nuclear Medicine
Communications, Jan;27(1):45-55.
- H.Ogul, E.Mumcuoglu, (2006), SVM-based
Detection of Distant Protein Structural Relationships Using Pairwise
Probabilistic Suffix Trees, Computational Biology and
Chemistry, 30 (4): 292-299.
H.Ogul, E.Mumcuoglu, (2006), Protein solvent accessibility
prediction using support vector machines and sequence conservations,
Lecture Notes in Artificial Intelligence, 3949: 141-148.
- Celasun
B, Mumcuoglu EÜ, Kalkan H
(2005), A Simulation Study on the Sampling of Sentinel Lymph
Nodes, Analytical
and Quantitative Cytology and Histology, vol. 27, no. 4, pg.
187-194.
- Oğul, H., Mumcuoğlu EÜ (2005) Discriminative
Remote Homology Detection Using Maximal Unique Sequence Matches,
A.F. Famili et al. (Eds.): Lecture Notes in Computer Science, 3646,
pp. 283 – 292, Springer-Verlag.
- Singh M., Mumcuoglu E.U. (1998) Design of a
CZT Based BreastSPECT System, IEEE Transactions on Nuclear
Science, vol. 45., no. 3, pg. 1158-1165
- Chan M.T., Leahy R.M., Mumcuoglu E.U, Cherry
S.R, Czernin J., Chatziioannou A. (1997) Comparing Lesion Detection
Performance for PET Image Reconstruction Algorithms: A Case Study, IEEE
Transactions on Nuclear Science, vol. 44, no. 4, pg. 1558-1563
- Cherry S.R., Shao Y., Siegel S., Silverman
R.W., Mumcuoglu E.U et.al. (1996) Optical Fiber Readout of
Scintillators Arrays using a Multi-Channel PMT: A High Resolution PET
Detector for Animal Imaging, IEEE Transactions on Nuclear
Science, vol. 43, no. 3, pg. 1932-1937
- Mumcuoglu E.U., Leahy R., et.al. (1996)
Bayesian Reconstruction of PET Images: Methodology and Performance
Analysis, Physics in Medicine and Biology, vol. 41.,
pg. 1777-1807
- Mumcuoglu E.U., Leahy R., et.al. (1994) Fast
Gradient-Based Methods for Bayesian Reconstruction of Transmission and
Emission PET Images, IEEE Transactions on Medical Imaging,
vol. 13, no.4, pg. 687-701
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PROFESSIONAL
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2006-
Associate
Professor, Informatics institute, METU, Ankara
2001–2006 Assistant
Professor, Informatics institute, METU, Ankara
2001
Senior DSP
Engineer, ITEX,
San Jose, USA
1999–2001 System
Design Engineer, Acuson, Mountain View, USA
1997-1998 Systems Software
Engineer, Teradyne Inc., Agoura Hills, USA
1997
Research
Associate, Biomedical Eng. Dept, USC, Los
Angeles, USA
1995–1996 Post-Doc, Crump
Institute for Biological Imaging, UCLA, Los Angeles, USA
1991–1994 Research
Assistant, EE, USC, USA
1987–1990 Research
Assistant, EE, Bilkent
University, Ankara
1985–1987 Assistant Engineer, R&D center, ASELSAN,
Ankara, Turkey
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