Computer Aided Medical Procedures (CAMP) - IN2021

Lecture by Prof. Dr. Nassir Navab & invited speakers. 4+0 SWS 6 ECTS Praktische Informatik Vertiefungsfach Abstract Prerequisites Benefits Preliminary Course Schedule Field Trips Siemens Medical Solutions, Tuesday Nov. 6, 2007 BrainLAB, Thursday, Jan 10, 2008 Literature Primary Literature Secondary Literature

Attention: Please fill in this as soon as possible. Alternatively, you can write an email to providing information about your name, email address, matriculation number, semester, and lectures your are attending at this chair (CAMP, 3DCV). Your registration is not binding but enables us to send you information about changes in schedule in the future. A password is needed to access the lecture slides. This will be announced in the first lecture. Further Information: The classes and exam are in English. This lecture is going to be succeeded by "Computer Aided Medical Procedures II" (see last year's CAMP 2 lecture page) (2+2 SWS, 5 ECTS) in the next summer term (which is recommended but not obligatory). In case of organizational questions, please contact Stefanie Demirci. Time & Location: Tuesdays, 13:00-14:30, MI 03.13.010 Thursdays, 14:30-16:00, MI 03.13.010 Exam: Date: Thursday, February 7, 2008, 14:30-16:00, MI 03.13.010 Type: written, closed book (no material), approx. 90min Grading of the exam: approx. 80% for detailed questions and problems to solve on the CAMP lectures (type "C" in the course schedule below) approx. 20% for more general questions on invited talks and field trips (types "I" and "F" in the course schedule below) Results: The results are published on the mytum page. They are accessible after login via "Examinations->Lists of marks and examination results". If you do not have a login just ask us directly for the grades. You can get your Schein from our Secretary.

Abstract

Computer science is playing an important, increasing role in medical practices. Medical imaging companies are no more asked by physicians to only produce images of anatomy. Instead, they are asked to design software and hardware systems to provide complex computer-aided solutions for diagnosis, intervention and therapy. There are more and more opportunities for computer science graduates to contribute to the development and deployment of medical solutions. Within the operating rooms, there is an increasing need for the integration and visualization of heterogeneous data acquired by numerous sensors.

This course on computer aided medical procedures exposes the students to the challenges of building the operating rooms of the future. The main focus of the course is in imaging technologies especially intra-operative imaging as well as the visualization of this data. Techniques like segmentation and registration will be explained in various classes.

There will be invited guests from the hospital Rechts der Isar and also medical companies in the Thursday classes. They will talk about the physical properties and the clinical use of the different modalitries and techniques. The invited guests will be announced in the course schedule below.

For a more detailed overview, see last year's lecture.

Prerequisites

• Interest in medical image processing

Benefits

• Knowledge in medical image acquisition / image modalities
• Deep insight into medical image computing

Preliminary Course Schedule

Date	Type	Topic	Conducted by	Material/Literature
Tue, Oct 16, 2007	C	Introduction 1	Prof. Dr. N. Navab	Slides
Thu, Oct 18, 2007	C	Introduction 2	Prof. Dr. N. Navab	Slides
Tue, Oct 23, 2007	C	Image Processing and Segmentation 1	A. Keil and Prof. Dr. N. Navab	Slides
Thu, Oct 25, 2007	C	Image Processing and Segmentation 2	A. Keil and Prof. Dr. N. Navab
Tue, Oct 30, 2007	C	Image Processing and Segmentation 3	A. Keil and Prof. Dr. N. Navab
Thu, Nov 01, 2007		no class due to All Saint's Day
Tue, Nov 06, 2007	T	fieldtrip to Siemens Medical Solutions
Thu, Nov 08, 2007	C	Rest of Image Proc. and Segmentation	A. Keil and Prof. Dr. N. Navab
Tue, Nov 13, 2007	I	Cone-Beam Reconstruction	Dr. G. Lauritsch	Slides
Thu, Nov 15, 2007	I	Magnetic Resonance Imaging - Basics and Applications	Dr. S. Nekolla	Slides
Tue, Nov 20, 2007	C	Computer-Aided Surgery and Exemplary Applications	Prof. Dr. N. Navab	Slides
Thu, Nov 22, 2007	I	Advanced MRI	Dr. S. Nekolla	Slides
Tue, Nov 27, 2007	I	Ultrasound Imaging	M. Schreckenberg	Slides
Thu, Nov 29, 2007	I	Physical Properties of Radiation with Applications in X-Ray and Radiation Therapy	Prof. Dr. P. Kneschaurek	Slides
Tue, Dec 04, 2007	C	Registration 1	Prof. Dr. N. Navab
Thu, Dec 06, 2007		no class due to Dies Academicus
Tue, Dec 11, 2007	C	Registration 2	Prof. Dr. N. Navab	Slides
Thu, Dec 13, 2007	I	Nuclear Medicine (PET/SPECT)	PD Dr. S. Ziegler
Tue, Dec 18, 2007	C	Registration 3	Martin Groher
Thu, Dec 20, 2007	I	3D/2D registration for image guided interventions and the problem of validation	Prof. Franjo Pernuš, PhD	Slides
		Christmas Holidays
Tue, Jan 08, 2008	C	Surgical Workflow	Prof. Dr. N. Navab	Slides
Thu, Jan 10, 2008	T	fieldtrip to BrainLAB
Tue, Jan 15, 2008	C	Basics of Tracking Technologies, Device Calibration, Camera Calibration	Prof. Dr. N. Navab, Joerg Traub	Slides
Thu, Jan 17, 2008	I	Registration-Free Navigation for Surgery	Prof. Dr. E. Euler	Slides
Tue, Jan 22, 2008	C	Medical Augmented Reality - Definition and State fo Art	Prof. Dr. N. Navab	Slides
Thu, Jan 24, 2008	C	Tracking, Tool Calibration and Navigated Nuclear Probes	Joerg Traub and Thomas Wendler	Slides  Slides
Tue, Jan 29, 2008	C	Visualization and Medical Augmented Reality	Prof. Dr. N. Navab	Medical AR  Visualization (112MB)  Visualization without videos (4MB)
Thu, Jan 31, 2008		Demo Session at the NARVIS-Lab starting 15:15
Tue, Feb 05, 2008		no class due to Fasching
Thu, Feb 07, 2008		Exam

Field Trips

Siemens Medical Solutions, Tuesday Nov. 6, 2007

There was a one day field trip to Siemens Medical in Forchheim and Erlangen on Thu, Nov. 2, 2006. We had a day full of talks and demos on CT, X ray systems, and MRI.

If you did not attend the field trip, you should try to get some knowledge on imaging modalities using the literature provided below.

Schedule:

• 06:45: Meeting point at the Garching parking lot
• 07:00-09:00: Transfer to Siemens CT/AX, Siemensstr. 1, Forchheim
• 09:15-10:45: Visit of CT (Computed Tomography), Dr. M. Scheuering
  • CT physics, reconstruction and applications
  • Visit of the final assembly and testing bays
• 10:50-12:15: Visit of AX (Angiography / X-Ray), Dr. J. Böse
  • Angio/X-ray systems
  • Demonstration of angio/X-ray systems
  • Visit of the assembly and testing bays
• 12:20-13:00: Lunch break in Forchheim (sponsored by AX)
• 13:05-13:45: Transfer to Siemens MR, Allee am Röthelheimpark 2, Erlangen
• 14:00-15:50: Visit of MR (Magnetic Resonance Imaging), Dr. S. Thesen and Dr. H. Meyer
  • Physics and applications of MR
  • Visit of the production line
  • Demo of a (regular and functional) MR session
• 16:00-18:00 Return to Garching

BrainLAB, Thursday, Jan 10, 2008

There will be a half-day field trip to BrainLAB, Kapellenstr. 12, 85622 Feldkirchen on Thursday, Jan 10, 2008.

We will meet directly at BrainLAB at 12:45pm. Unfortunately, we cannot provide a bus for this fieldtrip, so you are asked to get there by yourselves (carpool or public transport). For directions to BrainLAB you may want to have a look onto this map or the directions given on BrainLAB's website.

Schedule:

• 13:00-13:15: BrainLAB corporate introduction, RAP or ACQ [Auditorium]
• 13:15-14:45: Product Presentations (Split in two groups, change after 15 Minutes) [Demo Area]
  • 13:15-13:45: Spine (Martin Ringholz), Trauma (Melisa Staneker)
  • 13:45-14:15: Radiology (Sebastian Pentenrieder), Neuro (Stefan Ueblehoer)
  • 14:15-14:45: BrainSUITE (Bryan McGuinn), Oncology (Christine Seidler)
• 14:45-15:45: Facility tour - behind the products, RAP
• 15:45-16:00: Final discussion about opportunities for students, ACQ [Auditorium]

Literature

Primary Literature

• Overview
  • [Peters2000] Terry M. Peters: Image-guided surgery: From X-rays to Virtual Reality. Comput Methods Biomech Biomed Engin, 4(1):27-57, 2000
• Modalities
  • Computed Tomography
    • [Natterer1986] F. Natterer: The Mathematics of Computerized Tomography. John Wiley and Sons Ltd., 1986
    • [Kak2001] Avinash C. Kak and Malcolm Slaney: Principles of Computerized Tomographic Imaging. SIAM Society for Industrial & Applied Mathematics, 2001 (online version)
    • [Mueller1998] K. Mueller: Fast and accurate three-dimensional reconstruction from cone-beam projection data using algebraic methods. PhD dissertation, The Ohio State University, June, 1998
  • Magnetic Resonance Tomography
    • [MRBasics] Joseph P. Hornak: The Basics of MRI
    • [MRRevise] Dave M. Higgins: ReviseMRI
    • [MRInteractive] Interactive Course About MRI Physics
    • [MRSiemens] Magnets, Spins, and Resonances - An Introduction to the Basics of Magnetic Resonance (This is a publication from Siemens Medical about MRI and intended for your personal use only. Login/password are given in the lecture or via .)
    • [MRRummeny] Ernst J. Rummeney, Peter Reimer, and Walter Heindel (editors): Ganzkörper-MR-Tomographie. Thieme, 2002
• Image Processing / (Filtering, Morpholgical Operations, and Basic Segmentation Methods):
  • [GonzalezImageProcessing] R.C. Gonzalez and R.E. Woods: Digital Image Processing. Prentice Hall (see also the companion web site for downloads)
  • [JähneImageProcessing] B. Jähne: Digital Image Processing. Springer
  • [PeronaAnisotropicDiffusion] P. Perona and J. Malik. Scale-space and edge detection using anisotropic diffusion. IEEE Trans. Pattern Anal. Machine Intell., 12(7):629-639, 1990. doi:10.1109/34.56205
  • [FrangiVesselFilter] A. F. Frangi, W. J. Niessen, K. L. Vincken, M. A. Viergever. Multiscale vessel enhancement filtering. MICCAI 1998, LNCS 1496. Springerlink
• Segmentation:
  • [Pham2000] Dzung L. Pham, Chenyang Xu, and Jerry L. Prince. Current methods in medical image segmentation. Annual Review of Biomedical Engineering, 2:315-337, 2000. doi:10.1146/annurev.bioeng.2.1.315
  • [MortensenLiveWire1992] E. Mortensen, B. Morse, W. Barrett, and J. Udupa: Adaptive Boundary Detection Using "Live-Wire" Two-Dimensional Dynamic Programming. Computers in Cardiology 1992. pp. 635-638. doi:10.1109/CIC.1992.269378
  • [FalcaoLiveWire1998] A. X. Falcão et al.: User-Steered Image Segmentation Paradigms: Live Wire and Live Lane. Graphical Models and Image Processing 1998. Vol. 60, No. 4, pp. 233-260. doi:10.1006/gmip.1998.0475
  • [Kass1988] M. Kass, A. Witkin, and D. Terzopoulos. Snakes: Active contour models. International Journal of Computer Vision. Vol. 1, No. 4, pp. 321-331. 1988. doi:10.1007/BF00133570
  • [SethianLevelSetFastMarching] J. A. Sethian: Level Set Methods and Fast Marching Methods. Evolving Interfaces in Computational Geometry, Fluid Mechanics, Computer Vision, and Materials Science. Cambridge University Press
• Registration:
  • [Maintz1998] Maintz, J.B.A. & Viergever, M.A. A survey of medical image registration Medical Image Analysis, 1998, 2, 1-36
  • [Hajnal2001] J. V. Hajnal, D. L. G. Hill, and D. J. Hawkes: Medical Image Registration. CRC Press, Biomedical Engineering Series, 2001
• Computer Vision:
  • [Navab3DCV] N . Navab: Lecture on 3D Computer Vision
  • [HartleyCV] Richard Hartley and Andrew Zisserman: Multiple View Geometry in Computer Vision. Cambridge University Press, 2nd edition, 2004
• Computer Aided Surgery:
  • [Grimson1999] W. Eric L. Grimson, Ron Kikinis, Ferenc A. Jolesz, and Peter McL. Black: Image-Guided Surgery. Scientific American, 280(6) pp. 62-69, 1999

Secondary Literature

• [MICCAI] Various Proceedings of MICCAI (International Society and Conference Series on Medical Image Computing and Computer-Assisted Intervention)
• [TMI] Various IEEE Transactions on Medical Imaging
• [Mueller1998] K. Mueller: Fast and accurate three-dimensional reconstruction from cone-beam projection data using algebraic methods. PhD dissertation, The Ohio State University, June, 1998
• [CAS] Various Volumes of Computer Aided Surgery
• [CARS] Various Proceedings of CARS (Computer Assisted Radiology and Surgery - International Congress and Exhibition)