Yard. Doç. Dr. Özlem BİRGÜL

Eğitim
Yıl Derece Üniversite Bölüm
1995 Lisans Orta Doğu Teknik Üniversitesi Elektrik-Elektronik Mühendisliği
1997 Yüksek Lisans Orta Doğu Teknik Üniversitesi Elektrik-Elektronik Mühendisliği
2002 Doktora Orta Doğu Teknik Üniversitesi Elektrik-Elektronik Mühendisliği
anadal : biyomedikal
yandal : sinyal işleme
2004 Doktora Sonrası University of California, Irvine Radiological Sciences
Center for Functional Onco-Imaging
Araştırma Konuları
• geri problem çözümleri
• sayısal çözümler (sonlu elemanlar yöntemi, sınır elemanları yöntemi)
• manyetik rezonans-elektriksel iletkenlik görüntüleme
• yakın-kızılötesi görüntüleme
• üç boyut geri çatma problemleri
• öznitelik çıkarma ve karşılaştırma
Pozisyonlar
1994 – 1995 Yardımcı Asistan, Başkent Üniversitesi , Biyomedikal Cihaz Teknolojisi Yüksek Okulu
1995 – 2001 Araştırma Görevlisi, Orta Doğu Teknik Üniversitesi, Elektrik-Elektronik Mühendisiği Bölümü
2001 – 2004 Uzman, UCI Radiological Sciences, Center for Functional Onco-Imaging
2004 – 2007 Proje Yürütücüsü, UCI Radiological Sciences, Center for Functional Onco-Imaging
2008 – 2009 Başuzman Araştırmacı, TÜBİTAK UZAY Yapay Görü, Konuşma İşleme, Örüntü Tanıma ve Uzaktan Algılama Grubu
2009 – 2011 Bölüm Yöneticisi, TÜBİTAK UZAY Veri İşleme ve Uygulama Yazılımı Bölümü
Proje Yürütücüsü, TÜBİTAK UZAY Yüksek Kapasite ve Hızlı Bilgisayarlı Kovan ve Mermi Çekirdeği Balistik Görüntüsü Analiz ve Tanıma Sisteminin Geliştirilmesi – BALİSTİKA 2010
2009 – 2011 Ankara Üniversitesi Nükleer Bilimler Enstitüsü, Kısmi Zamanlı Öğretim Elemanı
2011 – Ankara Üniversitesi Nükleer Bilimler Enstitüsü, Yardımcı Doçent
2012 – Ankara Üniversitesi Nükleer Bilimler Enstitüsü, Enstitü Müdür Yardımcısı
Hakemlikler
2004 NIH, Center for Scientific Review, panel hakemliği
2005 – Institute of Physics (IOP) dergilerinde hakemlik (Physics in Medicine and Biology, Physiological Measurement, Inverse Problems, Measurement Science and Technology)
Projeler
Projenin Adı : Yüksek Kapasite ve Hızlı Bilgisayarlı Kovan ve Mermi Çekirdeği Balistik Görüntüsü Analiz ve Tanıma Sisteminin Geliştirilmesi – BALİSTİKA 2010
Görev : Proje Yürütücüsü
Sağlayan Kurum : TÜBİTAK KAMAG
Proje numarası : 107G194
Destek süresi
: 08/2008 – 04/2012 (8,505,811 TL)
Projenin Adı : Comparison of the Specificity of Magnetic Resonance-Electrical Impedance Tomography and Dynamic Contrast-Enhanced MRI in Breast Cancer
Görev : Proje Yürütücüsü
Sağlayan Kurum : Army Medical Research and Development Command
Proje numarası : W81XWH-04-1-0446
Destek süresi (miktarı) : 05/2004 – 04/2007 ($557,639)
Projenin Adı : 3D Tomographic Bioluminescence System for Noninvasive Assessment of Molecular Mechanisms Underlying Metastatic Progression in Mice
Görev : Araştırmacı
Sağlayan Kurum : Army Medical Research and Development Command
Proje numarası : BC031786
Destek süresi (miktarı) : 06/2004 – 05/2007 ($288,722)
Projenin Adı : Combined Imaging Modalities for Breast Cancer
Görev : Araştırmacı
Sağlayan Kurum : California Breast Cancer Research Program
Proje numarası : 12IB-0095
Destek süresi (miktarı) : 07/2006 – 06/2008 ($150,000)
Projenin Adı : Combined MR-Diffuse Optics for Functional Imaging
Görev : Araştırmacı
Sağlayan Kurum : PHS/NIH National Cancer Institute
Proje numarası : P30 CA-104548
Destek süresi (miktarı) : 04/2004 – 03/2008 ($1,815,280)
Projenin Adı : Electrical Impedance Tomography of Breast Cancer
Görev : Araştırmacı
Sağlayan Kurum : Army Medical Research and Development Command
Proje numarası : DAMD17-02-0326
Destek süresi (miktarı) : 05/2002 – 05/2004 ($299.881)
Yayınlar
Makaleler
1. Ider Y Z, Birgül Ö, Oran O F, Arikan O, Hamamura M J, Muftuler L T, “Fourier transform magnetic resonance current density imaging (FT-MRCDI) from one component of magnetic flux density,” Physics in Medicine and Biology, vol. 55, pp. 3177-3199, 2010.
2. Unlu M B, Lin Y, Birgül Ö, Nalcioglu O, and Gulsen G, “Simultaneous In vivo Dynamic MR-DOT for Small Animal Imaging,” Journal of Biomedical Optics, Vol. 13, 060501, 2008.
3. Chung S H, Cerussi A E, Klifa C, Baek H M, Birgül Ö, Gulsen G, Meritt S I, Hsiang D, Tromberg B J, “In vivo water state measurements in breast cancer using broadband diffuse optical spectroscopy,” Physics in Medicine and Biology, vol. 53, pp. 6713–6727, 2008.
4. Unlu M B, Birgül Ö, and Gulsen G, “A Simulation study of the variability of indocyanine green kinetics and using structural a priori information in dynamic contrast enhanced diffuse optical tomography (DCE-DOT),” Physics in Medicine and Biology, vol. 53, pp. 3189–3200, 2008.
5. Birgül Ö, Hamamura M J, Muftuler L T, and Nalcioglu O, “Contrast and spatial resolution in MREIT using low amplitude currents” Physics in Medicine and Biology, vol. 51, pp. 5035–5049, 2006.
6. Gulsen G, Birgül Ö, Unlu M B, Shafiiha R, and Nalcioglu O, “Combined Diffuse Optical Tomography (DOT) and MRI System for Cancer Imaging in Small Animals, ” Technology in Cancer Research and Treatment, vol. 5, no. 4, pp. 351-363, 2006.
7. Muftuler L T, Hamamura M J, Birgül Ö, and Nalcioglu O, “In vivo MRI Electrical Impedance Tomography (MREIT) of tumors” Technology in Cancer Research and Treatment, vol. 5, no. 4, pp. 381-387, 2006.
8. Unlu M B, Birgül Ö, Shafiiha R, Gulsen G, and Nalcioglu O, “Diffuse Optical Tomographic Reconstruction using Multi-frequency Data” Journal of Biomedical Optics, vol. 11, 2006.
9. Hamamura M J, Muftuler L T, Birgül Ö, and Nalcioglu O, “Measurement of ion diffusion using magnetic resonance electrical impedance tomography,” Physics in Medicine and Biology, Vol.51, No.11, pp.2753-2762, 2006.
10. Gulsen G, Xiong B, Birgül Ö, and Nalcioglu O “Design and Implementation of a Multi-Frequency Diffuse Optical Tomography (MF-DOT) System”, Journal of Biomedical Optics, 11(1), Jan/Feb 2006.
11. Muftuler T, Hamamura M, Birgül Ö, and Nalcioglu O, “Resolution and Contrast in Magnetic Resonance Electrical Impedance Tomography (MREIT) and Its Application to Cancer Imaging, ” Technology in Cancer Research and Treatment, vol. 3, no. 6, pp. 599-609, 2004.
12. Birgül Ö, Eyuboglu B M, and Ider Y Z, “Experimental results for 2D magnetic resonance electrical impedance tomography (MR-EIT) using magnetic flux density in one direction,” Physics in Medicine and Biology, Vol.48, No.21, pp. 3485-3504, 2003.
13. Birgül Ö, Eyuboglu B M, and Ider Y Z, “Current Constrained Voltage Scaled Reconstruction (CCVSR) Algorithm for MR-EIT and Its Performance for Different Probing Currents,” Physics in Medicine and Biology, Vol.48, No.5, pp.653-671, 2003.
14. Ider Y Z and Birgül Ö, “Use of Magnetic Field Generated by the Internal Distribution of Injected Currents for Electrical Impedance Tomography (MR-EIT),” Elektrik, Turkish Journal of Electrical Engineering and Computer Sciences, 6, no 3, 215-225, 1998.
15. Ider Y Z, Eyuboglu B M, Kuzuoglu M, Leblebicioglu K, Baysal U, Caglar B K, and Birgül Ö, “A Method for Comparative Evaluation of EIT Algorithms Using a Standard Data Set,” Physiological Measurement suppl. A vol.16, pp. 227-236, 1995.
Tezler
1. Birgül Ö, “Development of Different Reconstruction Algorithms for MR-EIT and Experimental Realization,” Orta Doğu Teknik Üniversitesi, Elektrik Elektronik Mühendisliği, Doktora Tezi, 2002.
(bu tez M.K. Parlar Yılın Tezi ödülüne layık görülmüştür)
2. Birgül Ö, “Electrical Impedance Tomography Using Magnetic Fields Generated by Injected Currents,” Orta Doğu Teknik Üniversitesi, Elektrik Elektronik Mühendisliği, Yüksek Lisans Tezi, 1997.
Davetli Sunumlar
1. Birgül Ö, Hamamura M J, Muftuler L T, and Nalcioglu O, “Magnetic Resonance-Electrical Impedance Tomography in Breast Cancer Imaging,” IEEE, International Symposium on Biomedical Imaging, Arlington VI, 2006.
2. Gulsen G, Unlu M B, Birgül Ö, Yan H, and Nalcioglu O, “A Multi-Modality System for Dynamic Imaging of Cancer, ” IEEE, International Symposium on Biomedical Imaging, Arlington VI, 2006.
Konferans Yayınları
1. Sakarya U, Es A E, Leloğlu U M, Tunalı E, Birgül Ö, “A Case Study of an Automated Firearms Identification System: BALİSTİKA 2010,” BIT’s 1st Annual World Congress of Forensics (WCF-2010), Dalian, China, October 21-23, 2010.
2. Öztürk A O, Büyükatalay S, Birgül Ö, “Tek Kamera ve Tek Yapısal Işık Kaynağı Kullanarak Mermi Kovanı Yükseklik Haritasının Oluşturulması”, IEEE 18. Sinyal İşleme ve Uygulamaları Kurultayı, 22-24 Nisan 2010, Diyarbakır, Türkiye
3. Büyükatalay S, Birgül Ö, Halıcı U, ” Işık Kaynakları Seçiminin ve Yüzey Özelliklerinin Fotometrik Stereo Hatasına Etkisi”, IEEE 18. Sinyal İşleme ve Uygulamaları Kurultayı, 22-24 Nisan 2010, Diyarbakır, Türkiye
4. Büyükatalay S, Birgül Ö, Halıcı U, “Surface Reconstruction from Multiple Images Filtering Non-Lambert Regions,” IEEE International Conference on Image Processing, Mısır, 7-11 Kasım 2009.
5. Büyükatalay S, Birgül Ö, Halıcı U, “3B Geriçatım için Gölge ve Parlama Bölgesi Saptamalı Döngülü Fotometrik Stereo,” SİU 2009 IEEE 17. Sinyal İşleme ve İletişim Uygulamaları Kurultayı, Antalya, Nisan 2009.
6. Öztürk A O, Birgül Ö, Esen E, Sakarya U, “Fotometrik Stereo Yönteminde Fotoğraflardali Gürültülerin Geriçatılmış Kovan Yükseklik Haritasına Etkileri,” SİU 2009 IEEE 17. Sinyal İşleme ve İletişim Uygulamaları Kurultayı, Antalya, Nisan 2009.
7. İder Y Z, Birgül Ö, Arıkan O, Hamamura M J, Müftüler L T, “Tekrarlamalı FT-MRCI yönteminin 2-Boyutlu Deneysel Fantom Verilerine Uygulanması,” 13. Biyomedikal Mühendisliği Ulusal Toplantısı, Ankara, Mayıs 2008.
8. Birgül Ö, Muftuler T M Hamamura M J, Nalcioglu O, “3D Magnetic Resonance Electrical Impedance Tomography at 4T using Sensitivity Matrix based Reconstruction,” ISMRM 15th Scientific Meeting and Exhibition Germany, May 2007.
9. Birgül Ö, Hamamura M J, Muftuler L T, and Nalcioglu O, “Comparison of Magnetic Resonance Electrical Impedance Tomography at 4T and 7T Field Strengths,” ISMRM 15th Scientific Meeting and Exhibition Germany, May 2007.
10. Hamamura M J, Muftuler L T, Birgül Ö, and Nalcioglu O, “Fast Imaging for Magnetic Resonance Electrical Impedance Tomography,” ISMRM 15th Scientific Meeting and Exhibition Germany, May 2007.
11. Hamamura M J, Muftuler M J, Birgül Ö, and Nalcioglu O, “Magnetic Resonance Electrical Impedance Tomography Using Biologically Safe Injected Current Levels,” ISMRM 15th Scientific Meeting and Exhibition Germany, May 2007.
12. Chen G, Muftuler L T, Birgül Ö, Hamamura M J, and Nalcioglu O, “Mutual Information Based MREIT Reconstruction Using MR Anatomical Data,” ISMRM 15th Scientific Meeting and Exhibition Germany, May 2007.
13. Muftuler M J, Birgül Ö, Hamamura M J, and Nalcioglu O, “Effects of Limited Volume Coverage on Accuracy of MR-Electrical Impedance Tomography”, ISMRM 15th Scientific Meeting and Exhibition Germany, May 2007.
14. Gulsen G, Unlu M B, Birgül Ö, and Nalcioglu O, “Combined MR and Diffuse Optical Tomography for Dynamic Contrast Enhanced Imaging,” ISMRM 15th Scientific Meeting and Exhibition Germany, May 2007.
15. Unlu M B, Gulsen G, Birgül Ö, Su M Y, and Nalcioglu O, “Improvement of the Specificity of DCE-MRI Using a Dynamic Optical Imaging System,” ISMRM 15th Scientific Meeting and Exhibition Germany, May 2007.
16. Gulsen G, Unlu M B, Birgül Ö, Shafiiha R, and Nalcioglu O, “Simultaneous monitoring of multiple contrast agents using a hybrid MR-DOT system” Proceedings of SPIE (6431-Multi-modal Biomedical Imaging) 20-25 January 2007.
17. Birgül Ö, Muftuler L T, Hamamura M J, and Nalcioglu O, “Reconstruction of Irregular Conductivity Distributions using MREIT at Low Current Levels,” ISMRM 14th Scientific Meeting and Exhibition Seattle, Washington, May 2006.
18. Hamamura M J, Muftuler L T, Birgül Ö, and Nalcioglu O, “Dynamic Magnetic Resonance Electrical Impedance Tomography Using Sub-Milliamp Injected Currents,” ISMRM 14th Scientific Meeting and Exhibition Seattle, Washington, May 2006.
19. Hamamura M J, Muftuler L T, Birgül Ö, and Nalcioglu O, “Electrode Misalignment Correction Algorithms In Magnetic Resonance Electrical Impedance Tomography,” ISMRM 14th Scientific Meeting and Exhibition Seattle, Washington, May 2006.
20. Hamamura M J, Muftuler L T, Birgül Ö, and Nalcioglu O, “Multiple Current Injection Schemes In Magnetic Resonance Electrical Impedance Tomography,” ISMRM 14th Scientific Meeting and Exhibition Seattle, Washington, May 2006.
21. Muftuler L T, Hamamura M J, Birgül Ö, and Nalcioglu O, “In Vivo MRI Based Electrical Impedance Tomography of Malignant Tumors,” ISMRM 14th Scientific Meeting and Exhibition Seattle, Washington, May 2006.
22. Shafiiha R, Unlu M B, Gulsen G, Birgül Ö, Hamamura M, Chu Y, and Nalcioglu O, “Improving the accuracy of the chromophore reconstruction in diffuse optical tomography by using structural and functional-priors from MRI,” ISMRM 14th Scientific Meeting and Exhibition Seattle, Washington, May 2006.
23. Birgül Ö, Unlu M B, Shafiiha R, Gulsen G, and Nalcioglu O, “Selection of Optimal Modulation Frequencies in Multi-Frequency DOT,” OSA Biomedical Optics Topical Meeting, 2006.
24. Birgül Ö, Gulsen G, Shafiiha R, Unlu M B, and Nalcioglu O, “In vivo Small Animal Imaging using Combined MR-DOT System,” OSA Biomedical Optics Topical Meeting, 2006.
25. Gulsen G, Unlu M B, Birgül Ö, Yan H, and Nalcioglu O, “A Dual Modality System for Dynamic Contrast Enhanced Imaging,” OSA Biomedical Optics Topical Meeting, 2006.
26. Birgül Ö, Muftuler L T, Hamamura M, and Nalcioglu O, “Iterated Sensitivity Algorithm for Magnetic Resonance Electrical Impedance Tomography,” Era of Hope DOD Breast Cancer Research Program Meeting, Philadelphia PA, June 8-11, 2005.
27. Unlu M B, Birgül Ö, and Gulsen G, “3D Bioluminescence Tomography for Animal Imaging,”
Era of Hope DOD Breast Cancer Research Program Meeting, Philadelphia PA, June 8-11, 2005.
28. Muftuler L T, Hamamura M, Birgül Ö, and Nalcioglu O, “MRI Based Electrical Impedance Imaging of Tumors,” Era of Hope DOD Breast Cancer Research Program Meeting, Philadelphia PA, June 8-11, 2005.
29. Gulsen G, Birgül Ö, Shafiiha R, Unlu M B, and Nalcioglu O, “Design and implementation of a multi-frequency diffuse optical tomography system (MF-DOT) system compatible with MRI,” Network for Translational Research Optical Imaging (NTROI) Retreat, Newport Beach, CA., June 3-5 2005.
30. Unlu M B, Birgül Ö, and Gulsen G, “Bioluminescence tomography with a-priori information,” Network for Translational Research Optical Imaging (NTROI) Retreat, Newport Beach, CA, June 3-5 2005.
31. Muftuler L T, Hamamura M, Birgül Ö, and Nalcioglu O, “MRI Based Electrical Impedance Imaging of Tumors with Iterated Sensitivity Reconstruction using Regularization,” ISMRM 13th Scientific Meeting, Miami, FL, May 2005.
32. Hamamura M, Muftuler T, Birgül Ö, and Nalcioglu O, “Tracking of Sodium Changes Using MR-EIT,” ISMRM 13th Scientific Meeting, Miami, FL, May 2005.
33. Gulsen G, Birgül Ö, Xiong B, and Nalcioglu O, “Multi-frequency DOT and MR Imager for Small Animal Imaging,” Photonics West, San Jose, CA, January 2005.
34. Gulsen G, Birgül Ö, and Nalcioglu O, “A hybrid DOT and MR Imager for Small Animal Imaging,” 4th Inter-Institute Workshop on Optical Diagnostic Imaging from Bench to Bedside at the National Institute of Health, Washington, 20-22 September 2004.
35. Gulsen G, Birgül Ö, and Nalcioglu O, “Combined CT and 3D Bioluminescence Tomography System,” Network for Translational Research Imaging (NTROI) Retreat, Newport Beach, CA, June 2004.
36. Birgül Ö, Muftuler L T, Hamamura M J, and Nalcioglu O, “MR-EIT of Malignant Tumors in Rats,” ISMRM 11th Scientific Meeting, 2003.
37. Hamamura M J, Muftuler L T, Birgül Ö, and Nalcioglu O, “Assessment of the Efficacy of Electrical Impedance Imaging Using MRI,” ISMRM 11th Scientific Meeting, 2003.
38. Birgül Ö, Eyuboglu B M and Ider Y Z, “Magnetic resonance – electrical impedance tomography (MR-EIT) using magnetic flux density in one direction and experimental realization,” Proceedings of the Fourth Engineering Network Meeting on Biomedical Applications of EIT, Manchester – U.K., pp.52, 2003.
39. Gulsen G, Birgül Ö, and Nalcioglu O, “Hybrid DOT and MRI System”, Proceedings of SPIE, vol. 4955, pp 246-252, 2003.
40. Birgül Ö, Ozbek O, Eyuboglu M, and Ider Y Z, “Magnetic Resonance-Conductivity Imaging using 0.15 Tesla MRI Scanner,” IEEE EMBS 23rd Annual Conference, Istanbul, 2001.
41. Ozbek O, Birgül Ö, Eyuboglu M, and Ider Y Z, “Imaging Current Density Using 0.15T MRI System,” IEEE EMBS 23rd Annual Conference, Istanbul, 2001.
42. Birgül Ö, Eyuboglu M, and Ider Y Z, “A New Technique for High Resolution Absolute Conductivity Imaging Using Magnetic Resonance-Electrical Impedance Tomography (MR-EIT),” SPIE Medical Imaging Conference, San Diego, 2001.
43. Birgül Ö, Eyuboglu B M, and Ider Y Z, “Manyetik Rezonans Kullanilarak Yuksek Çozunurluklu Mutlak Empedans Goruntuleme,” ELECO Elektrik-Elektronik-Bilgisayar Muhendisligi Sempozyum ve Fuari, Bursa, November 2000.
44. Eyuboglu B M, Birgül Ö, and Ider Y Z, “Magnetic Resonance – Electrical Impedance Tomography (MR-EIT), a New Technique for High Resolution Conductivity Imaging,” 2nd EPSRC Engineering Network Meeting: “Biomedical Applications of EIT”, University College, London, April 5-7 2000.
45. Birgül Ö, Eyuboglu B M, and Ider Y Z, “Magnetic Resonance – Electrical Impedance Tomography (MR-EIT), a New Technique for High Resolution Conductivity Imaging”, Proc. of IEEE Engineering in Medicine and Biology, 21st Annual International Conference, CD-ROM, Atlanta, 1999.
46. Birgül Ö, Ider Y Z, and Gencer N G, “MRI-EIT icin Duyarlilik Matrisinin Turetilmesi,” TMMOB Elektrik Muhendisleri Odasi Elektrik-Elektronik Bilgisayar Muhendisligi 7. Ulusal Kongresi Bildiri Kitabi, pp. 338-171, Ankara, 1997.
47. Birgül Ö and Ider Y Z, “Electrical Impedance Tomography using Magnetic Field Generated by Internal Currents.” Proc. of IEEE Engineering in Medicine and Biology, 18th Annual International Conference, CD-ROM, Amsterdam, 1996
48. Birgül Ö and Ider Y Z, “Use of Magnetic Field Generated by the Internal Distribution of Injected Currents for Electrical Impedance Tomography,” Proc. of IXth International Conference on Electrical Bio-Impedance in conjunction with European Concerted Action on Impedance Tomography, pp 418-414, Heidelberg, September 1995.
49. Ider Y Z, Muftuler L T, and Birgül Ö, “Use of MRI for Measuring AC Internal Currents of EIT: A feasibility Study,” Proc. of IXth International Conference on Electrical Bio-Impedance in conjunction with European Concerted Action on Impedance Tomography, pp 420-421, Heidelberg, September 1995.