Jeremy Kawahara Vancouver, Canada B [email protected] Í kawahara.ca ca.linkedin.com/in/jeremykawahara/ Education Sept 2013 - Ph.D. student in Computing Science, Simon Fraser University. Present Medical Image Analysis Lab Sept 2011 - M.Sc. in Computing Science, Simon Fraser University. Sept 2013 Medical Image Analysis Lab 2011 B.Sc. in Computing Science, Vancouver Island University, with Distinction. Experience Oct 2014 - Research Assistant, Simon Fraser University, Burnaby. Present A current focus is on how to classify skin diseases from colour images Sept 2013 - Research Assistant, Qatar Robotic Surgery Centre/SFU, Doha/Burnaby. Sept 2014 Researched how to distinguish between kidney and tumour within ultrasound video during an image guided robotic surgery Sept 2011 – Teaching Assistant, Simon Fraser University, Burnaby. April 2014 CMPT 128: Intro to Computing Science for Engineering Students (4 semesters) CMPT 376: Writing for Computer Scientists CMPT 340: Biomedical Computing Explained and answered students’ programming questions, wrote tutorials, marked tests and assignments, and provided constructive feedback on students’ work April 2012 - Research Assistant, Simon Fraser University, Burnaby. Aug 2013 Researched methods to segment the spinal cord from magnetic resonance images (MRI) and predict the clinical disability of a multiple sclerosis patient Focused on segmentation, minimal path optimization, machine learning, statistical models, and feature extraction 2010 – 2013 Owner/Software Developer, Kawahara Innovations, Nanaimo. Developed data-entry desktop software to track fishing and hunting activities from distributed databases for analysis and reporting, gathered customer requirements, and handled business aspects (invoicing, contracts, sub-contractors) 2009 – 2010 Peer Tutor, Vancouver Island University Disability Services, Nanaimo. Tutored students with learning disabilities computing courses 2008 – 2010 Software Developer, Fisheries and Oceans Canada, Nanaimo. Implemented systems to store, organize, report and internationally share otolith thermal mark information as part of an interdisciplinary team Provided training, support, maintenance and documentation to laboratory personnel Publications J. Kawahara, C. McIntosh, R. Tam, and G. Hamarneh, “Augmenting auto-context with global geometric features for spinal cord segmentation,” in MICCAI Workshop on Machine Learning in Medical Imaging (MLMI), vol. 8184 of Lecture Notes in Computer Science, pp. 211–218, Springer, 2013. (Peer reviewed, poster presentation). J. Kawahara, C. McIntosh, R. Tam, and G. Hamarneh, “Globally optimal spinal cord segmentation using a minimal path in high dimensions,” in IEEE International Symposium on Biomedical Imaging (IEEE ISBI), pp. 836–839, 2013. (Peer reviewed, poster presentation). J. Kawahara, C. McIntosh, R. Tam, and G. Hamarneh, “Novel morphological and appearance features for predicting physical disability from MR images in multiple sclerosis patients,” in MICCAI Workshop on Computational Methods and Clinical Applications for Spine Imaging, Lecture Notes in Computer Science, pp. 54–66, Springer, 2013. (Peer reviewed, oral presentation). G. Hamarneh, A. Amir-Khalili, M. Nosrati, I. Figueroa, J. Kawahara, O. Al-Alao, J.-M. Peyrat, J. Abi-Nahed, A. Al-Ansari, and R. Abugharbieh, “Towards multi-modal imageguided tumour identification in robot-assisted partial nephrectomy,” in IEEE Middle East Conference on Biomedical Engineering (IEEE MECBME), pp. 159–162, 2014. (Peer reviewed). J. Kawahara, J.-M. Peyrat, O. Al-Alao, R. Abugharbieh, and G. Hamarneh, “Automatic Labelling of Tumourous vs Tumour-Free Frames in Free-Hand Laparoscopic Ultrasound Video,” in MICCAI, pp. 676–683, Springer, 2014. (Peer reviewed, poster presentation). J. Kawahara and G. Hamarneh, “Image Content-Based Navigation of Skin Conditions,” in World Congress of Dermatology (WCD), 2015. (Peer reviewed abstract, poster presentation). J. Kawahara and K. Hein, “Development of thermal mark data sharing methods,” tech. rep., Fisheries and Oceans Canada, 2010. http://fund.psc.org/2008/Reports/NF_ 2008_I_21_McConnell.pdf. Master’s Thesis and Research Projects Title Spinal cord segmentation and disability prediction in multiple sclerosis using novel optimization and machine learning methods Supervisors Dr. Ghassan Hamarneh, Dr. Roger Tam, Dr. Chris McIntosh Description This thesis summarizes our research and publications on spinal cord segmentation and disability prediction in multiple sclerosis patients. As well, it includes an analysis of our two segmentation methods. Thesis https://theses.lib.sfu.ca/thesis/etd7957 More info. http://kawahara.ca/segment-spinal-cord-predict-disability-in-ms-patients/ Title Globally optimal spinal cord segmentation using a minimal path in high dimensions Description We developed a method to segment the spinal cord from MRI using an A* minimal path search in high dimensions. This minimal path in between two user entered seed points represents the globally optimal spinal cord segmentation. Our work was presented at the 2013 IEEE International Symposium on Biomedical Imaging (ISBI). Paper http://www.cs.sfu.ca/~hamarneh/ecopy/isbi2013b.pdf More info. http://kawahara.ca/spinal-cord-seg-astar/ Title Augmenting auto-context with global geometric features for spinal cord segmentation Description We proposed a machine learning approach to segment the spinal cord from MRI and introduced a novel type of feature that considers a large amount of image context. Our work was presented at the 2013 MICCAI international workshop on Machine Learning in Medical Imaging (MLMI). Paper http://www.cs.sfu.ca/~hamarneh/ecopy/miccai_mlmi2013a.pdf More info. http://kawahara.ca/augment-auto-context-with-global-features-miccai-mlmi/ Title Novel morphological and appearance features for predicting physical disability from MR images in multiple sclerosis patients Description We extracted features from MRI and spinal cord segmentations and built linear and non-parametric, non-linear models to predict the physical disability of a patient with multiple sclerosis. Our work was presented at the 2013 MICCAI international workshop on Computational Methods and Clinical Applications for Spine Imaging (CSI). Paper http://www.cs.sfu.ca/~hamarneh/ecopy/miccai_csi2013.pdf More info. http://kawahara.ca/predict-disability-in-ms-patients-using-mri-miccai-csi/ Bachelor’s Research Project Title Development of Computer Aided Annuli Detection Software Supervisor Dr. Huizhu Liu Description We developed computer-aided detection software to assist in identifying the age of chum salmon scales from images of the scales. The software was developed using the OpenCV image processing and machine learning libraries. We demonstrated proof-of-concept and a rudimentary software approach to age fish scales Paper Reviewer for the Following Conference 2014 Middle East Conference on Biomedical Engineering (IEEE MECBME) Technical Skills & Expertise Basic Intermediate Interests Tools OS ASP.NET, HTML, ITK, OpenCV, Perl, PHP, Python, R C/C++, database design, Java, LATEX, MATLAB, Oracle DB, PL/SQL, VB.NET Medical image analysis, image segmentation, machine learning, statistical models, deep learning CMake, Eclipse, Visual Studio Windows, Mac, Linux Scholarships and Awards 2015 2015 2014 2014 2013 2013 2002 Graduate Fellowship, Jan 2015, Simon Fraser Univsersity (Institutional Competition) Borden Ladner Gervais Graduate Scholarship, Jan 2015, (Institutional Competition) NSERC PGS D, 3 year funding, Sept 05th 2014, NSERC, (National Competition) MICCAI Society Student Travel Award, May 23rd 2014, (International Competition) Travel and Minor Research Award, October 28th 2013, Simon Fraser University Travel and Minor Research Award, March 15th 2013, Simon Fraser University Passport to Education, 2002, Prov, Secondary School academic award. Group Affiliations Sept 2011 - Medical Image Analysis Lab, Burnaby, BC, Canada Present http://www.cs.sfu.ca/~hamarneh/students.html Jan 2014 - Elected council representative for SFU’s Computing Science graduate students Present http://sfugradsociety.ca/?page_id=62 Sept 2013 - Image Guided Robotic Surgery, Doha, Qatar Sept 2014 http://igrs.cs.sfu.ca/Team.html Sept 2010 - Toastmasters International, Nanaimo, BC, Canada Aug 2011 Qualities Through my work, school and research, I have demonstrated the ability to independently set priorities, meet deadlines and efficiently manage time and resources. I have a strong aptitude for problem solving and analytical thinking that is complemented by proficient oral and written communication. I am very eager to research, learn and develop state-of-the-art methods for medical data analysis and I look forward to contributing to these exciting fields. Last updated: Monday 27th April, 2015
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