由於磁振造影具有非侵入性探測的特色，所以被廣泛地發展以應用在臨床分析的研究上。隨著磁振頻譜影像應用於臨床的例子逐漸增多，人類對於此技術的貢獻抱持著正面以及肯定的態度，以致於陸續開發出一些後處理的軟體，其中比較廣受大眾使用的分析量化軟體為 LCModel。LCModel 雖然採用了圖形操作介面讓使用者對於磁振頻譜影像的分析達到方便以及簡潔的目的。然而，依然有許多比較實用的功能， LCModel 並沒有提供，例如：磁振造影與磁振頻譜的整合分析以及瀏覽全部分析之後的資訊內容。

因此本次的研究實作開發了一個架構，以針對 General Electric及 Siemens 的磁振頻譜影像作後處理與應用，並且也提供了一些對於臨床上有幫助的功能，包含互動式的顯示及二維磁振頻譜資訊的分析與選擇。再者，由於多平台性質的分析，因此對於不同廠商的掃描機器所產生的磁振頻譜、磁振影像與 LCModel 所輸出的資料作整合是必要的。所以三個切面的投影與 metabolite/spectra map也會是此系統工具所提供的其中功能。此系統工具在處理分析General Electric的資料時也採用了一些機制，如轉換資訊、三個切面影像的偵測以及磁振頻譜影像的偵測，這些皆會在本論文中提出。除此之外，這個後處理工具也擁有了日後擴充其他所需功能的相容性，特別是針對臨床應用帶來更大的彈性與更多的便利性。

Magnetic resonance (MR) has been developed and applied to clinical analysis studies due to its non-invasive properties. Because of the increasing interest of applying magnetic resonance spectroscopy imaging (MRSI) to clinical application, some post-processing softwares, like LCModel, provide a graphical user interface for convenient and efficient analysis. However, the features of combining MR imaging (MRI) with MRS information and browsing all analyzed results are not provided by LCModel.

Our study proposed a method to implement the architecture for processing General Electric (GE), Siemens MRSI data sets and provides features including interactive display, selection and analysis of full 2D slices. For multi-console analysis, our tool also provides the combination of MRS, MRI, and data sets generated by LCModel, such as the projection of three planes and metabolite/spectra map, and therefore the three formats of data sets could be obtained from scanners of various manufactures. Especially, it is more complicated when processing GE data sets, so some mechanisms for processing are proposed, like the transformation, the three plane loc images detection and MRSI detection, etc. Additionally, our tool also has the advantage of the compatibility of further extended functionalities, which would be more flexible and useful for clinical applications.

致謝.................................................................................................................................i
中文摘要.......................................................................................................................ii
Abstract....................................................................................................................... iii
Table of Contents ........................................................................................................iv
List of Figures..............................................................................................................vi
List of Tables............................................................................................................. viii
Chapter 1 Introduction................................................................................................1
1.1 Background......................................................................................................1
1.2 Related Work....................................................................................................2
1.3 Motivation........................................................................................................5
Chapter 2 Materials and Methods..............................................................................8
2.1 Theory ..............................................................................................................8
2.1.1 Fundamental of Nuclear Magnetic Resonance (NMR) in vivo ............8
2.1.2 Fundamental of NMR Spectroscopy in vivo ......................................12
2.1.3 MRS Localization Technique..............................................................15
2.1.4 Proton Echo Planar Spectroscopic Imaging (PEPSI)..........................15
2.2 Experimental environments ...........................................................................16
2.3 Overview of the software...............................................................................17
2.4 Formats ..........................................................................................................19
2.4.1 DICOM (Digital Imaging and Communications in Medicine) format19
2.4.2 “Coord” format ...................................................................................20
2.5 Framework of our work .................................................................................20
2.5.1 The role of our post-processing interface system...............................21
2.5.2 The global framework of our post-processing interface system.........21
2.5.3 Flow diagram of processing the MRSI data sets ................................23
2.5.4 The flexible matrix size of FOV.........................................................24
2.5.5 The solution of decision or detection in non-header situation............24
2.5.6 The three plane loc images detection..................................................26
Chapter 3 Experimental Results...............................................................................41
Chapter 4 Conclusions...............................................................................................51
References ...................................................................................................................52

1. H. Pfeifer, A short history of nuclear magnetic resonance spectroscopy and of its early years in Germany. Magnetic Resonance in Chemistry, 1999. 37(13): p. S154-S159.
2. Stewart C. Bushong, S., FACR, FACMP, Magnetic Resonance Imaging. 3rd Edition. 2003: Mosby, Inc. 512.
3. Nouha Salibi, M.A.B., Clinical MR Spectroscopy : First Principles. 1997, United States of America: John Wiley & Sons, Ltd. 236.
4. Jansen JF, B.W., Nicolay K, Kooi ME, 1H MR spectroscopy of the brain : absolute quantification of metabolites. Radiology, 2006. 240(2): p. 318-32.
5. Meng Law, M., Soonmee Cha, MD, Edmond A. Knopp, MD, Glyn Johnson, PhD, John Arnett, BS, Andrew W. Litt, MD High-grade gliomas and solitary metastases : differentiation by using perfusion and proton spectroscopic MR imaging. Radiology, 2002. 222(3): p. 715-21.
6. Damien Galanaud, F.N., Olivier Chinot, Sylviane Confort-Gouny, Dominique Figarella-Branger, Pierre Roche, Stephane Fuentes, Yann Le Fur, Jean-Philippe Ranjeva, Patrick J. Cozzone, Noninvasive diagnostic assessment of brain tumors using combined in vivo MR imaging and spectroscopy. Magnetic Resonance in Medicine, 2006. 55(6): p. 1236-1245.
7. Franklyn A. Howe, K.S.O., 1H MR spectroscopy of brain tumours and masses. NMR in Biomedicine, 2003. 16(3): p. 123-131.
8. Leentje Vanhamme, A.v.d.B., Sabine Van Huffel, Improved Method for Accurate and Efficient Quantification of MRS Data with Use of Prior Knowledge. Journal of Magnetic Resonance, 1997. 129(1): p. 35-43.
9. Naressi A, C.C., Devos JM, Janssen M, Mangeat C, de Beer R, Graveron-Demilly D, Java-based graphical user interface for the MRUI quantitation package. Magma, 2001. 12(2-3): p. 141-52.
10. Sarka Mierisova, A.v.d.B., Ivan Tkac, Paul Van Hecke, Leentje Vanhamme, Tibor Liptaj, New approach for quantitation of short echo time in vivo 1H MR spectra of brain using AMARES. NMR in Biomedicine, 1998. 11(1): p. 32-39.
11. MRUI - Magnetic Resonance User Interface, http://www.mrui.uab.es/mrui/.
12. Leentie Vanhamme, T.S., Paul Van Hecke, Sabine Van Huffel, MR spectroscopy quantitation : a review of time-domain methods. NMR in Biomedicine, 2001. 14(4): p. 233-246.
13. Boogaart, A.v.d., Quantitative data analysis of in vivo MRS data sets. Magnetic Resonance in Chemistry, 1997. 35(13): p. S146-S152.
14. Hja in 't Zandt, M.v.d.G., A. Heerschap, Common processing of in vivo MR spectra. NMR in Biomedicine, 2001. 14(4): p. 224-232.
15. Mary A. McLean, F.G.W., Gareth J. Barker, John S. Duncan, Quantitative analysis of short echo time 1H-MRSI of cerebral gray and white matter. Magnetic Resonance in Medicine, 2000. 44(3): p. 401-411.
16. Stephen W. Provencher, Automatic quantitation of localized in vivo 1H spectra with LCModel. NMR in Biomedicine, 2001. 14(4): p. 260-264.
17. Stephen W. Provencher, P.D., Estimation of metabolite concentrations from localized in vivo proton NMR spectra. Magnetic Resonance in Medicine, 1993. 30(6): p. 672-679.
18. Sarka Mierisova, M.A.-K., MR spectroscopy quantitation : a review of frequency domain methods. NMR in Biomed, 2001. 14(4): p. 247-59.
19. Martin Kanowski, J.K., Jurgen Braun, Johannes Bernarding, Claus Tempelmann, Quantitation of simulated short echo time 1H human brain spectra by LCModel and AMARES. Magnetic Resonance in Medicine, 2004. 51(5): p. 904-912.
20. C.W. Ko, Absolute Quantification and Automatic Post-processing of MR Proton Spectroscopic Data, in Department of Electrical Engineeting. 2003, National Taiwan University: Taipei. p. 96.
21. C.W. Ko, B.W.K., Martin Buechert. GUI for automatic post processing and display of 2D-SI data sets with LCModel. in ISMRM 11th International Scientific Meeting. 2003. Toronto, Canada.
22. M.H. Yu, Development of integrated graphic user interface for 2D/3D MR spectroscopic imaging with LCModel, in Department of Computer Science and Engineering. 2007, National Sun Yat-sen University: Kaohsiung. p. 64.
23. Stephen W. Provencher, LCModel & LCMgui User's Manual. 2007.
24. Healthcare, G.E., Discovery Dicom Conformance Statement for DICOM 2007. 2007.
25. Graaf, R.A.d., In Vivo NMR Spectroscopy : Principles and Techniques. 2008: John Wiley & Sons, Ltd.
26. e-MRI.org : Free online Magnetic Resonance Imaging course, http://www.e-mri.org/.
27. Chan., L., The current status of magnetic resonance spectroscopy--basic and clinical aspects. West J Med, 1985. 143(6): p. 773-81.
28. S. Posse, High-speed MR Spectroscopic Imaging. in ISMRM 15th International Scientific Meeting. 2007. Berlin, Germany.
29. S. Posse, G. Tedeschi, R. Risinger, R. Ogg, D. Le Bihan, High Speed 1H Spectroscopic Imaging in Human Brain by Echo Planar Spatial-Spectral Encoding. Magnetic Resonance in Medicine, 1995. 33: p. 34-40.
30. A.R. Guimaraes, J. R. Baker, B.G. Jenkins, P.L. Lee, R.M. Weisskoff, B.R. Rosen, R.G. Gonzalez, Echoplanar Chemical Shift Imaging. Magnetic Resonance in Medicine, 1999. 41: p. 877-882.
31. Association, N.E.M., Digital Imaging and Communications in Medicine (DICOM): Part 1. 2007.