Hauptseminar/Master Seminar:
Novel Medical Imaging Methods

Tobias Lasser, Nassir Navab

Type: Advanced Seminar Course Module IN8901
Type: Master Seminar Module IN2107
Type: Seminar Module IN0014
SWS: 2+0
ECTS: 4 Credits
Time/Location: 5 blocks (see schedule below), MI 03.13.010
Course Language: English

Announcements

• The seminar is closed, the results are available via TUMonline.

Requirements

In this Master Seminar (formerly Hauptseminar), each student is asked to select one topic from the list below. In order to successfully complete the seminar, participants are required to:

• Present the selected paper to the other participants (30 minutes presentation 15 minutes question). Use the CAMP templates for Power Point: CAMPmaster.pot and CAMPmasterstandardfonts.pot, or Latex: CAMP-latex-template.zip:

• Submit a written handout (8 pages maximum). Please download the llncs2e.zip latex format.
• Attend all seminar sessions and participate.

Each presentation is followed by a discussion and everyone is encouraged to actively participate. The handout must include all references used and must be written completely in your own words. Copy and paste wont be tolerated. Both handout and presentation have to be done in English.

Registration

Interested students, please take a look at the papers listed below and select one you would like to base your seminar talk on. Then please send an email to Tobias Lasser, including your paper choice, your name, your birthday, program of study and Matrikelnummer. Registration is closed.

Presentation Topics

Please choose one of the following papers/topics for your seminar presentation. For obtaining the full-text PDFs, please use Google and especially Google Scholar. In case you are interested in a paper but cannot find the full text, please e-mail us.

Introductory Topics

• Introduction to Tomography I: analytical methods

• Introduction to Tomography II: series expansion methods

X-ray imaging methods

• (taken) Ptychographic X-ray computed tomography at the nanoscale, Dierolf et al., Nature 467(7314), 2010

• (taken) Phase retrieval and differential phase-contrast imaging with low-brilliance X-ray sources, Pfeiffer et al., Nature Physics 2(4), 2006

• (taken) Interlaced phase stepping in phase-constrast x-ray tomography, Zanette et al., Applied Physics Letters 98(9), 2011

• (taken) Toward clinical X-ray phase-contrast CT: demonstration of enhanced soft-tissue contrast in human specimen, Donath et al., Investigative Radiology 45(7), 2010

• (taken) Hard-X-ray dark-field imaging using a grating interferometer, Pfeiffer et al., Nature Materials 7, 2008

• (taken) Directional x-ray dark-field imaging of strongly ordered systems, Jensen et al., Physical Review B 82(21), 2010

Optical imaging methods

• (taken) Going deeper than microscopy: the optical imaging frontier in biology, Ntziachristos, Nature Methods 7(8), 2010

• (taken) Hybrid system for simultaneous fluorescence and X-ray computed tomography, Schulz et al., IEEE TMI 29(2), 2010

• (taken) Early photon tomography allows fluorescence detection of lung carcinomas and disease progression in mice in vivo, Niedre et al., PNAS 105(49), 2008

• (taken) In vivo imaging of Drosophila melanogaster pupae with mesoscopic fluorescence tomography, Vinegoni et al., Nature Methods 5, 2008

• (taken) Multispectral opto-acoustic tomography of deep-seated fluorescent proteins in vivo, Razansky et al., Nature Photonics 3(7), 2009

• (taken) Intraoperative near-infrared fluorescence imaging for sentinel lymph node detection in vulvar cancer: First clinical results, Crane et al., Gynecologic Oncology 120(2), 2011

Nuclear imaging methods

• (taken) PET/MRI: Paving the Way for the Next Generation of Clinical Multimodality Imaging Applications, Pichler et al., Journal of Nuclear Medicine, 51(3), 2010

• (taken) Joint Reconstruction of Image and Motion in Gated Positron Emission Tomography, Blume et al., IEEE TMI 29(11), 2010

• (taken) Dynamic Cone Beam Reconstruction Using a New Level Set Formulation, Keil et al., MICCAI, 2009

• (taken) First demonstration of 3-D lymphatic mapping in breast cancer using freehand SPECT, Wendler et al, EJNMMI 37(8), 2010

Schedule

The seminar consists of a preliminary meeting, an introductory meeting and seminar sessions. Each of the sessions has several student presentations. All seminar participants are expected to be present at every session and to actively participate in the discussion.

Date	Location	Topic	Presenter
Feb 11, 2011 at 13:00	MI 03.13.054	preliminary meeting	Tobias Lasser
May 3, 2011 at 9:00	MI 03.13.010	initial meeting	Tobias Lasser
May 23, 2011 at 15:00	MI 03.13.010	01 Introduction to Tomography	Tobias Lasser
May 23, 2011 at 16:30	MI 03.13.010	02 Ptycho-Tomography	Vladimir Golkov
May 23, 2011 at 17:15	MI 03.13.010	03 Differential Phase-Contrast Imaging	Fabian Petter
Jun 3, 2011 at 13:30	MI 03.13.010	04 Interlaced DPC	Ho Pei-Yi Heidi
Jun 3, 2011 at 14:15	MI 03.13.010	05 Clinical DPC	Niko Mäkelä
Jun 3, 2011 at 15:15	MI 03.13.010	06 Dark-field Imaging	Marcel Ruegenberg
Jun 3, 2011 at 16:00	MI 03.13.010	07 Directional Dark-field Imaging	Yasmin Blunck
Jun 17, 2011 at 13:30	MI 03.13.010	08 Optical Imaging Overview	Eleni Siampli
Jun 17, 2011 at 14:15	MI 03.13.010	09 Hybrid FMT-XCT	Kanishka Sharma
Jun 17, 2011 at 15:15	MI 03.13.010	10 Early Photon Tomography	Martin Waltl
Jun 17, 2011 at 16:00	MI 03.13.010	11 Mesoscopic Fluorescence Tomography	Deepak Murali
Jun 20, 2011 at 15:00	MI 03.13.010	12 Multispectral Opto-acoustic Tomography	Hemal Naik
Jun 20, 2011 at 15:45	MI 03.13.010	13 Intraoperative Multi-spectral Imaging	Anastasia Tseneklidou
Jun 20, 2011 at 16:45	MI 03.13.010	14 PET/MR	Ayah Haidar
Jun 24, 2011 at 13:30	MI 03.13.010	15 PET+motion	Pinar Firat
Jun 24, 2011 at 14:15	MI 03.13.010	16 CT+motion	Lorand Gal
Jun 24, 2011 at 15:15	MI 03.13.010	17 Freehand SPECT	Max-Emanuel Hoffmann

Literature and Helpful Links

A lot of scientific publications can be found online.

The following list may help you to find some further information on your particular topic:

• Microsoft Academic Search
• Google Scholar
• CiteSeer
• CiteULike
• Collection of Computer Science Bibliographies

Some publishers:

• ScienceDirect (Elsevier Journals)
• IEEE Journals
• ACM Digital Library

Libraries (online and offline):

• http://rzblx1.uni-regensburg.de/ezeit/ (Elektronische Zeitschriften Bibliothek)
• Verbundkatalog des Bibliotheksverbundes Bayern (BVB)
• Computer ORG
• http://www.ub.tum.de/ (TUM Library)
  • To get access onto the electronic library, see http://www.ub.tum.de/medien/ejournals/readme.html
  • "proxy.biblio.tu-muenchen.de" mit Port 8080 (nur fuer http). Damit klappen zumindest portal.acm.org und computer.org meistens
• Various proceedings of conferences in our AR-Lab, 03.13.036 (These proceedings are not for lending!)

Some further hints for working with references:

• JabRef is a Java program for comfortable working with Bibtex literature databases. Handy feature: if you know the PubMed ID for an article, JabRef can import data from there (via "Web Search/Medline").
• Mendeley is a cross-platform program for organising your references.

If you find useful resources that are not already listed here, please tell us, so we can add them for others. Thanks.