Hakan Bulu, PhD

My Experiences as a Software Engineer

I have been working as a Software Engineer since 2003. You can see some of my experiences as follows.

IBM

Web-based medical image annotation tool.
(2016-Present)

JavaScript, Java, RESTful, JQuery, HTML5, CSS

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Board Snap

Web-based board sharing and note taking application.
(2017)

JavaScipt, HTML, CSS, Jquery, C#, MS SQL, Java

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Stanford University

Java API for AIM (Annotation Imaging Markup) V3.0 and V4.0
(2013-2016)

Java, OOD, XML, NoSQL

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DEU FBE

Student Informaton System.
(2003-2013)

C#, Visual Basic, MS SQL, ODBC, SAP Crystal Reports, ASP.NET

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Auto Service Manager

Customer and service record management system for small and mid size auto services.
(2009)

C#, MS Access, SAP Crystal Reports

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Emlak Pro

Customer and portfolio management system for real estate agencies.
(2005)

C#, MS Access, SAP Crystal Reports

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Doktor Pro

Patients and exams management system for small and mid size clinics.
(2003)

C#, MySQL, SAP Crystal Reports

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My Experiences as a Researcher

I have received my M.Sc. and Ph.D. degrees from Department of Computer Engineering at Dokuz Eylul Univesity, Turkey. Then, I did my post doctoral researches at Stanford University, CA, U.S.

Software Engineer Researcher

IBM Almaden Research Center, CA, U.S.A.
I have been developing algorithms for classification of digital signals and deep learning model for segmentation of 3D medical images.
Keys: Deep Learning, Feature Engineering
2016 -> Present

3 Patents and 2 Conference Puplications

Postdoctoral Scholar

Stanford University, CA, U.S.A.
My research project was extracting clinical features and new BI-RADS terms from free-text mammography reports.
Keys: Nature Language Processing-NLP
2014 -> 2016

1 Journal Puplication

Doctor of Philosophy (Ph.D.)

Computer Engineering, Dokuz Eylul University, Turkey
Subject: Ontology-Based Medical Image Annotation and Retrieval
I have developed a Mammography Annotation and Case-based Retrieval Tool by using QT cross-platforms application and UI framework.
Keys: C++, QT, Image Processing, Semantic Web, Ontology, Knowledge Representation, SWRL, SQWRL, DICOM, Inference, OWL, RDF
2006 -> 2013

2 Journal and 3 Conference Puplications

Master of Science (M.Sc.)

Computer Engineering, Dokuz Eylul University, Turkey
Subject: Comparision of 3D Segmentation Algorithms for Medical Imaging
I have developed an application to compare and display results of different 3D Segmentation algorithms for Magnetic Resonance Imaging (MRI) and Computed/Computer Tomography (CT) Images.
Keys: C#, The Visualization Toolkit (VTK), 3D Visualization, 3D Segmentation
2003 -> 2006

2 Conference Puplications

Fellowships

Stanford University

Medical School Tuition Fellowship.
Supported by Stanford University Department of Radiology.
Jul 2011 - Jan 2012

TUBITAK

International Research Fellowship (Code: 2214).
Supported by The Scientific and Technological Research Council of Turkey.
Jul 2011 - Jan 2012

TUBITAK

National Ph.D. Fellowship (Code: 2221).
Supported by The Scientific and Technological Research Council of Turkey.
Feb 2007 - Aug 2008

Publications

Gopalkrishna Veni, Mehdi Moradi, Hakan Bulu, Girish Narayan, Tanveer Syeda-Mahmood, “Echocardiagraphy segmentation based on a shape-guided deformable model driven by a fully convolutional network prior”, ISBI 2018, 2018.
Hakan Bulu, Dorothy A. Sippo, Janie M. Lee, Elizabeth Burnside, Daniel L. Rubin, “Proposing new RadLex Terms by Analyzing Free-text Mammography Reports”, Journal of Digital Imaging (JDI), 2018.
Yaniv Gur, Mehdi Moradi, Hakan Bulu, Yufan Guo, Colin Compas, Tanveer Syeda-Mahmood, “Towards an Efficient Way of Building Annotated Medical Image Collections for Big Data Studies”, LABELS 2017, CVII 2017, STENT 2017, Pages 87-95, 2017.
Hakan Bulu, Adil Alpkocak, Pinar Balci, “Uncertainty Modeling for Ontology-based Mammography Annotation with Intelligent BI-RADS Scoring”, Computers in Biology and Medicine, Volume 43, Issue 4, Pages 301-311, May 1, 2013.
Hakan Bulu, Adil Alpkocak, Pinar Balci, “Ontology-based Mammography Annotation and Case‑based Retrieval of Breast Masses”, Expert Systems with Applications, Volume 39, Issue 12, Pages 11194-11202, September 15, 2012.
Hakan Bulu, Adil Alpkocak, Pinar Balci, Oguz Dicle, “Intelligent BI‑RADS Calculation of Annotated Breast Masses”, 32th National Radiology Conference (TURKRAD-2011), Antalya, Turkey, 2011.
Hakan Bulu, Adil Alpkocak, Pinar Balci, Oguz Dicle, “Case-based Retrieval System for Mammographic Examinations”, 7th National Medical Informatics Conference (TURKMIA-2010), Magusa, Cyprus, 2010.
Ozlem Ozturk, Hakan Bulu, Adil Alpkocak, Cuneyt Guzelis, “Low Level Feature Selection for a Content Based Digital Mammography Image Retrieval System”, 17th IEEE Signal Processing and Communications Applications Conference (SIU‑2009), Antalya, Turkey, 2009.
Hakan Bulu, Adil Alpkocak, “Comparison of 3D Segmentation Algorithms for Medical Imaging”, Proceedings of 20th IEEE International Symposium on Computer-Based Medical Systems (CBMS 2007), Maribor, Slovenia, June 20-22, 2007.
Hakan Bulu, Adil Alpkocak, “Comparison of 3D Segmentation Algorithms for Medical Imaging”, 15th IEEE Signal Processing and Communications Applications Conference (SIU 2007), Eskisehir, Turkey, 2007.
Mete Mutlu, Ozcan Sari, Hakan Bulu, “A Research on Color Difference Formulas on Leather”, Textile and Confection, Issue 1, Pages 294-297, Bornova/Izmir, Turkey, 2006.
Mete Mutlu, Ozcan Sari, Hakan Bulu, “Research on Measurement of Color and Determination of Color Differences on Leather”, 1st National Symposium on Leather, Izmir, Turkey, October 7-8, 2004.

Hakan Bulu, Ph.D.

Overview

My Experiences as a Software Engineer

IBM

(2016 - Present)

Board Snap

(2017)

Stanford University

(2013- 2016)

DEU FBE

(2017)

Auto Service Manager

(2017)

Emlak Pro

(2017)

Doktor Pro

(2017)

uFoop

(2017)

Others

(2017)

My Experiences as a Researcher

Software Engineer Researcher

Postdoctoral Scholar

Doctor of Philosophy (Ph.D.)

Master of Science (M.Sc.)

Education

Fellowships

Stanford University

TUBITAK

TUBITAK

Patents

Publications

Contact