BA, Physics, University of Colorado

PhD, Mathematics, Oregon State University

University Scholarships Committee, Chair

Mathematical modelling of medical and biological systems

Medical image analysis

- Medical image analysis

Principal supervisor
: Modelling the spread of avian flu
(1)
; Automatic assessment of breast cancer risk
(1)
; Spatio-temporal models for the structure of cancellous bone
(1)
; Automatic detection and characterisation of malaria
(1)
; Automatic assessment of femur fracture risk
(1)
;

Principal supervisor
: Graph matching applied to temporal analysis of screening mammograms
(1)
; Structural anisotropy of trabecular bone
(1)
; Texture analysis of screenig mammograms
(1)
; Early detection of clustered microcalcification in screening mammograms
(1)
; Logistics equations with diffusion, delay and impulses
(1)
;

- Williams, S. and Bottema, M. (2012). Additive Dirichlet models for projectional images. In Proceedings of SPIE. Medical Imaging 2012: Image Processing.

[10.1117/12.911862] - Bottema, M.J. (2011). Mathematics in Medical Image Analysis. In The 6th SEAMS-GMU International Conference on Mathematics and its Applications. Yogyakarta Indonesia: Southeast Asian Mathematical Society. SEAMS-GMU International Conference on Mathematics and its Applications.
- Sidik, W.A., Bottema, M. and Bajger, M. (2011). A Cross-Species Avian Human Influenza Epidemic Model: Effects of some control strategies. In Proceedings of ANZIAM Conference. ANZIAM Conference 2011. Adelaide. Jan 2011.
- Bottema, M., Bajger, M., ma, F. and Williams, S. (2011). Mathematics in medical image analysis: a focus on mammography. In Proceedings of the 6th SEAMS-GMU International Conference on Mathematics and Applications. 6th SEAMS-GMU Conference.
- Sidik, W.A., Bottema, M. and Bajger, M. (2011). A Cross-Species Avian-Human Influenza Epidemic Model: Economic trade off on the disease spread and controls. In Proceedings of AICST Conference. ACIKITA International Conference of Science and Technology. Jakarta, Indonesia. Jul 2011.
- Sidik, W.A., Bottema, M. and Bajger, M. (2011). A Cross-Species Avian-Human Influenza Epidemic Model: Transport related co-infection. In Proceedings of 7th ICIAM Conference. Canada7th ICIAM Conference 2011. Vancouver, Canada. Jul 2011.
- Sidik, W.A., Bottema, M. and Bajger, M. (2011). A Cross-Species Avian-Human Influenza Epidemic Model: Effects of human behaviours on the disease spread and control. In Proceedings of the 6th SEAMS-GMU International Conference on Mathematics and Applications. 6th SEAMS-GMU Conference. Jogjakarta. Jul 2011.
- Sidik, W.A., Bottema, M. and Bajger, M. (2010). A Cross-Species Avian Human Influenza Epidemic Model: Disease Spread. In Proceedings of 54th Australian Mathematical Society Conference. Brisbane, Australia54th AustMS Conference. Brisbane. Sep 2010.
- Ma, F., Bajger, M. and Bottema, M.J. (2008). A graph matching based automatic regional registration method for sequential mammogram analysis. In Geiger, M. L. and Karssemeijer, ed. Progress in Biomedical Optics and Imaging - Proceedings of SPIE. SPIE. Medical Imaging 2008: Computer-Aided Diagnosis. San Diego, USA. Feb 2008.

[10.1117/12.770322] [Scopus]

- Li, X., Williams, S., Downey, P.R. and Bottema, M.J. (2014). Temporal breast cancer risk assessment based on higher-order textons. In Proceedings of the 12th International Workshop on Breast Imaging, IWDM 2014. Springer: Lecture Notes in Computer Science. 12th International Workshop on Breast Imaging, IWDM 2014. Gifu City; Japan. Jun 2014.
- Bottema, M., Bajger, M., Williams, S. and Ma, F. (2012). Mathematics in medical image analysis: a focus on mammography. In W Wahyuni, IE Mijayanti & D Rosadi, ed. Proceedings of the 6th SEAMS-GMU International Conference on Mathematics and Its Applications. Yogyakarta, Indonesia: Universitas Gadjah Mada. Mathematics and Its Applications in the Development of Sciences and Technology. Yogyakarta, Indonesia. Jul 2011, pp. 51-64.
- Li, X., Williams, S. and Bottema, M.J. (2012). Intensity independent texture analysis in screening mammograms. In ADA Maidment, PR Bakic & S Gavenonis, ed. Breast Imaging: 11th International Workshop Proceedings. Heidelberg, Germany: Springer. IWDM 2012. Philadelphia, USA. Jul 2012, pp. 474-481.

[10.1007/978-3-642-31271-7_61] - Bajger, M., Ma, F., Williams, S. and Bottema, M.J. (2010). Mammographic mass detection with statistical region merging. In Proceedings: DICTA 2010. USA: IEEE. Digital Image Computing: Techniques and Applications. Sydney, NSW. Dec 2010, pp. 27-32.
- Ma, F., Bajger, M., Williams, S. and Bottema, M.J. (2010). Improved detection of cancer in screening mammograms by temporal comparison. In Joan Marti, Arnau Oliver, Jordi Freixenet, Robert Marti, ed. Lecture Notes in Computer Science: Digital Mammography IWDM 2010. Germany: Springer-Verlag Berlin. International Workshop on Digital Mammography. Girona, Spain. Jun 2010, pp. 752-759.
- Bajger, M., Ma, F. and Bottema, M.J. (2009). Automatic tuning of MST segmentation of mammograms for registration and mass detection algorithms. In Shi, Zhang, Bottema, Lovell, Meader, ed. DICTA 2009 Digital Image Computing Techniques and Applications. USA: IEEE Computer Society. Digital Image Computing Techniques and Applications. Melbourne, Australia. Dec 2009, pp. 400-407.

[10.1109/DICTA.2009.72] - Ma, F., Bajger, M. and Bottema, M.J. (2009). Automatic mass segmentation based on adaptive pyramid and sublevel set analysis. In Shi, Zhang, Bottema, Lovell, Meader, ed. DICTA 2009 Digital Image Computing Techniques and Applications. USA: IEEE Computer Society. Digital Image Computing Techniques and Applications. Melbourne, Australia. Dec 2009, pp. 236-241.

[10.1109/DICTA.2009.47] - Ma, F., Bajger, M. and Bottema, M.J. (2008). Temporal analysis of mammograms based on graph matching. In Krupinski, Elizabeth, ed. Digital Mammography (Lecture Notes in Computer Science series) Berlin: Springer. 9th International Workshop on Digital Mammography. Tucson, AZ, USA. Jul 2008, pp. 158-165.

[10.1007/978-3-540-70538-3_23] [Scopus] - Ma, F., Bajger, M. and Bottema, M.J. (2007). Robustness of two methods for segmenting salient features in screening mammograms. In Proceedings of DICTA. Los Alamitos, USA: IEEE. 9th Biennial Conference of the Australian Pattern Recognition Society on Digital Image Computing Techniques and Applications (DICTA) Glenelg, SA. Dec 2007, pp. 112-117.

[10.1109/DICTA.2007.4426784] [Scopus] - Ma, F., Bajger, M., Slavotinek, J.P. and Bottema, M.J. (2006). Validation of Graph Theoretic Segmentation of the Pectoral Muscle. In Astley, S. (Sue), ed. Digital Mammography - 8th International Workshop, IWDM 2006. Berlin: Springer. 8th International Workshop, IWDM 2006. Manchester, UK. Jun 2006, pp. 642-649.

[10.1007/11783237_86] [Scopus] - Lee, G.N., Bottema, M.J., Hara, T. and Fujita, H. (2006). Effect of quantisation on co-occurrence matrix based texture features: An example study in mammography. In Proceedings of SPIE Medical Imaging 2006: Computer-Aided Diagnosis. SPIE Medical Imaging 2006, pp. 614451-614459.

[10.1117/12.653256] - Lee, G.N. and Bottema, M.J. (2005). Classification of ROI as invasive lobular carcinoma or normal. In Digital Mammography:7th International Workshop on Digital Mammography. 7th International Workshop on Digital Mammography, pp. 640-645.
- Cleek, T.M., Bottema, M.J., Fazzalari, N. and Reynolds, K.J. (2005). Assessment of Fourier Tools for Cancellous Bone Structure Analysis. In Brian C. Lovell; Anthony J. Maeder, ed. APRS Workshop Proceedings, WDIC 2005. St Lucia, Queensland: University of Queensland Press. APRS Workshop on Digital Image Computing. Griffith University, Brisbane. Feb 2005.
- Bajger, M., Ma, F. and Bottema, M.J. (2005). Minimum spanning trees and active contours for identification of the pectoral muscle in screening mamograms. In BC Lovell, AJ Maeder, T Caelli, S Ourselin, ed. Proceedings Digital Image Computing: Techniques and Applications DICTA 2005. Danvers, USA: Institute of Electrical and Electronic Engineers. Digital Image Computing Techniques and Applications 2005. Cairns, QLD, Australia. Dec 2005, pp. 47.

[10.1109/DICTA.2005.55] - Ma, F., Bajger, M. and Bottema, M.J. (2005). Extracting the pectoral muscle in screening mammograms using a graph pyramid. In Brian C Lovell and Anthony J Maeder, ed. Proceedings of the APRS Workshop on Digital Image Computing (WDIC) 2005. St Lucia, Queensland, Australia: University of Queensland Press. APRS Workshop on Digital Image Computing. Griffith University, Brisbane, Australia. Feb 2005.
- Badiei, A., Bottema, M.J. and Fazzalari, N. (2005). Expected and observed changes to architectural parameters of trabecular bone with aging - A comparison of measurement techniques. In BC Lovell, AJ Maeder, T Caelli, S Oursellin, ed. Digital Image Computing Techniques and Applications (DICTA) 2005. Danvers, USA: IEEE Computer Society Conference Publishing Service. Digital Image Computing Techniques and Applications (DICTA) 5. Cairns, Queensland, Australia. Dec 2005, pp. 491-497.

[10.1109/DICTA.2005.1578169] [Scopus] - Lee, G.N. and Bottema, M.J. (2003). Statistical significance of Az scores: classification of masses in screening mammograms as benign or malignant based on high dimensional texture feature space. In Lovell, B. CMeader, A. J, ed. Proceedings of the 2003 APRS Workshop on Digital Image Computing. Brisbane, Australia: University of Queensland Press. WDIC 2003. Brisbane, QLD. Feb 2003, pp. 105-110.
- Lu, S. and Bottema, M.J. (2003). Structural image texture and early detection of breast cancer. In Lovell, B. CMeader, A. J, ed. Proceedings of the 2003 APRS Workshop on Digital Image Computing. Brisbane: University of Queensland Press. WDIC 2003. Brisbane, QLD. Feb 2003, pp. 15-20.

- Li, X., Williams, S. and Bottema, M. (2014). Constructing and applying higher order textons: Estimating breast cancer risk.
*Pattern Recognition Letters,*47(3) pp. 1375-1382.

[10.1016/j.patcog.2013.09.033] [Scopus] - Li, X., Williams, S. and Bottema, M. (2014). Texture and region dependent breast cancer risk assessment from screening mammograms.
*Pattern Recognition Letters,*36(15) pp. 117-124.

[10.1016/j.patrec.2013.10.001] - Li, X., Williams, S. and Bottema, M. (2013). Background intensity independent texture features for assessing breast cancer risk in screening mammograms.
*Pattern Recognition Letters,*34(9) pp. 1053-1062.

[10.1016/j.patrec.2013.01.031] [Scopus] - Fazzalari, N., Martin, B., Reynolds, K., Cleek, T., Badiei, A. and Bottema, M. (2012). A model for the change of cancellous bone volume and structure over time.
*Mathematical Biosciences,*240(2) pp. 132-140.

[10.1016/j.mbs.2012.06.006] [Scopus] - Ivancevic, T.T., Bottema, M.J. and Jain, L.C. (2011). A Fractal Attractor Model in Avascular Tumor Proliferation.
*Cancer Research Journal,*4(4) pp. 1-15. - Widjaja, J. and Bottema, M.J. (2009). Positive attractor of diffusive logistics equations with infinite time delay and impulses.
*Dynamics of Continuous Discrete and Impulsive Systems-Series A-Mathematical Analysis,*16(2) pp. 287-295.

[Scopus] - Kerr, G.D., Bottema, M.J. and Bull, C.M. (2008). Lizards with rhythm? Multi-day patterns in total daily movement.
*Journal of Zoology,*275(1) pp. 79-88.

[10.1111/j.1469-7998.2008.00413.x] [Scopus] - Badiei, A., Bottema, M.J. and Fazzalari, N.L. (2007). Influence of Orthogonal Overload on Human Vertebral Trabecular Bone Mechanical Properties.
*Journal of Bone and Mineral Research,*22(11) pp. 1690-1699.

[10.1359/jbmr.070706] [Scopus] [Web Link] - Ma, F., Bajger, M., Slavotinek, J.P. and Bottema, M.J. (2007). Two graph theory based methods for identifying the pectoral muscle in mammograms.
*Pattern Recognition,*40(9) pp. 2592-2602.

[10.1016/j.patcog.2006.12.011] [Scopus] - Badiei, A., Bottema, M.J. and Fazzalari, N. (2006). Expected and Observed Changes to Descriptors of Trabecular Architecture with Aging - A Comparison of Measurement Techniques.
*Australasian Physical and Engineering Sciences in Medicine,*29(1) pp. 48-52.

[Scopus] - Jones, D.B., Campbell, L., Bottema, M.J., Teubner, P.J., Cartwright, D.C., Newell, W.R., et al. (2006). Electron-driven excitation of O2 under night-time auroral conditions: excited state densities and band emissions.
*Planetary and Space Science,*54(1) pp. 45-59.

[10.1016/j.pss.2005.08.007] [Scopus] - Lee, G.N. and Bottema, M.J. (2006). Significance of classification scores subsequent to feature selection.
*Pattern Recognition Letters,*27(14) pp. 1702-1709.

[10.1016/j.patrec.2006.03.012] [Scopus] - Teubner, M.D., Nixon, J., Rasser, P., Bottema, M.J. and Clark, R.R. (2005). Source localisation in a real human head.
*Brain Topography,*17(4) pp. 197-205.

[10.1007/s10548-005-6029-x] [Scopus] - Widjaja, J. and Bottema, M.J. (2005). Existence of solutions of diffusive logistic equations with impulses and time delay and stability of the steady-states.
*Dynamics of Continuous Discrete and Impulsive Systems-Series A-Mathematical Analysis,*12(5) pp. 563-578.

[Scopus] - Jones, D.B., Campbell, L., Bottema, M.J. and Brunger, M.J. (2003). New electron-energy transfer rates for vibrational excitation of O2.
*New Journal of Physics,*5(114) pp. 114.1-114.11.

[10.1088/1367-2630/5/1/114] [Scopus] - Nixon, J.B., Rasser, P., Teubner, M.D., Clark, C.R. and Bottema, M.J. (2003). Numerical model of electrical potential within the human head.
*International Journal for Numerical Methods in Engineering,*56(15) pp. 2353-2366.

[10.1002/nme.649] [Scopus]

- Li, X., Williams, S. and Bottema, M. (2014). Constructing and applying higher order textons: Estimating breast cancer risk.
*Pattern Recognition Letters,*47(3) pp. 1375-1382.

[10.1016/j.patcog.2013.09.033] [Scopus] - Li, X., Williams, S. and Bottema, M. (2014). Texture and region dependent breast cancer risk assessment from screening mammograms.
*Pattern Recognition Letters,*36(15) pp. 117-124.

[10.1016/j.patrec.2013.10.001] - Li, X., Williams, S. and Bottema, M. (2013). Background intensity independent texture features for assessing breast cancer risk in screening mammograms.
*Pattern Recognition Letters,*34(9) pp. 1053-1062.

[10.1016/j.patrec.2013.01.031] [Scopus] - Fazzalari, N., Martin, B., Reynolds, K., Cleek, T., Badiei, A. and Bottema, M. (2012). A model for the change of cancellous bone volume and structure over time.
*Mathematical Biosciences,*240(2) pp. 132-140.

[10.1016/j.mbs.2012.06.006] [Scopus] - Ivancevic, T.T., Bottema, M.J. and Jain, L.C. (2011). A Fractal Attractor Model in Avascular Tumor Proliferation.
*Cancer Research Journal,*4(4) pp. 1-15. - Widjaja, J. and Bottema, M.J. (2009). Positive attractor of diffusive logistics equations with infinite time delay and impulses.
*Dynamics of Continuous Discrete and Impulsive Systems-Series A-Mathematical Analysis,*16(2) pp. 287-295.

[Scopus] - Kerr, G.D., Bottema, M.J. and Bull, C.M. (2008). Lizards with rhythm? Multi-day patterns in total daily movement.
*Journal of Zoology,*275(1) pp. 79-88.

[10.1111/j.1469-7998.2008.00413.x] [Scopus] - Badiei, A., Bottema, M.J. and Fazzalari, N.L. (2007). Influence of Orthogonal Overload on Human Vertebral Trabecular Bone Mechanical Properties.
*Journal of Bone and Mineral Research,*22(11) pp. 1690-1699.

[10.1359/jbmr.070706] [Scopus] [Web Link] - Ma, F., Bajger, M., Slavotinek, J.P. and Bottema, M.J. (2007). Two graph theory based methods for identifying the pectoral muscle in mammograms.
*Pattern Recognition,*40(9) pp. 2592-2602.

[10.1016/j.patcog.2006.12.011] [Scopus] - Lee, G.N. and Bottema, M.J. (2006). Significance of classification scores subsequent to feature selection.
*Pattern Recognition Letters,*27(14) pp. 1702-1709.

[10.1016/j.patrec.2006.03.012] [Scopus]

Professional memberships:

Australian Pattern Recognition Society (Former President)

Australian Mathematical Society

Society for Industrial and Applied Mathematics

American Mathematical Society

- Images/Imaging
- Signal Processing
- Tomography

- Signal and Image Processing non linear filters, median filters, image compression
- Medical Imaging Analysis computer aided screening mammography, computed tomography

Assoc Prof
Murk
Bottema
Flinders University
http://www.flinders.edu.au/people/murk.bottema

Phone: | +61 8 82013652 |

Email: | murk.bottema@flinders.edu.au |

Location: | Tonsley (4.07) |

Postal address: | GPO Box 2100, Adelaide 5001, South Australia |