Dr Shakes Chandra
Dr

Shakes Chandra

Email: 
Phone: 
+61 7 336 58359

Background

Shakes an imaging expert that leads a strong deep learning, artificial intelligence (AI) focused research team interested in medical image analysis and signal/image processing applied to many areas of science and medicine. He received his Ph.D in Theoretical Physics from Monash University, Melbourne and has been involved in applying machine learning in medical imaging for over a decade.

Shakes’ past work has involved developing shape model-based algorithms for knee, hip and shoulder joint segmentation that is being developed and deployed as a product on the Siemens syngo.via platform. More recent work involves deep learning based algorithms for semantic segmentation and manifold learning of imaging data. Broadly, he is interested in understanding and developing the mathematical basis of imaging, image analysis algorithms and physical systems. He has developed algorithms that utilise exotic mathematical structures such as fractals, turbulence, group theoretic concepts and number theory in the image processing approaches that he has developed.

He is currently a Senior Lecturer and leads a team of 20+ researchers working image analysis and AI research across healthcare and medicine. He currently teaches the computer science courses Theory of Computation and Pattern Recognition and Analysis.

Availability

Dr Shakes Chandra is:
Available for supervision

Fields of research

Artificial intelligence Biomedical engineering Biomedical imaging Combinatorics and discrete mathematics (excl. physical combinatorics) Computational imaging Computer vision and multimedia computation Deep learning Engineering Image processing Information and Computing Sciences Machine learning Mathematical Sciences Pure mathematics Theory of computation

Qualifications

  • Doctor of Philosophy, Monash University

Research interests

  • Magnetic Resonance Imaging

    Making MRI faster and more affordable through better image reconstruction, processing and analysis.

  • Image Processing

    Image reconstruction, segmentation and registration.

  • Deep learning

    Dimensionality reduction, machine learning and Artificial Intelligence

  • Fractals and Chaos

    Applying fractals and chaos to image processing and computer science.

  • Number Theory

    Applying number theory to image processing and computer science.

  • Medical Image Analysis

    Medical image segmentation and shape analysis

Research impacts

Times Higher Education - A joint effort: machine learning’s search for the first MRI-based biomarker of osteoarthritis

UQNews - Making magnetic resonance imaging (MRI) faster using fractals and turbulence.

Search Professor Shakes Chandra’s works on UQ eSpace

98 works between 2006 and 2025
All (98) Journal Article (49) Conference Publication (46) Other Outputs (3)

81 - 98 of 98 works

2013

Journal Article

Automated bone segmentation from large field of view 3D MR images of the hip joint

Xia, Ying, Fripp, Jurgen, Chandra, Shekhar S., Schwarz, Raphael, Engstrom, Craig and Crozier, Stuart (2013). Automated bone segmentation from large field of view 3D MR images of the hip joint. Physics in Medicine and Biology, 58 (20), 7375-7390. doi: 10.1088/0031-9155/58/20/7375

Automated bone segmentation from large field of view 3D MR images of the hip joint

2013

Conference Publication

Direct Inversion of Mojette Projections

Svalbe, Imants, Kingston, Andrew, Guedon, Jeanpierre, Normand, Nicolas and Chandra, Shekhar S. (2013). Direct Inversion of Mojette Projections. 20th IEEE International Conference on Image Processing, ICIP 2013, Melbourne , Australia, 15 - 18 September 2013. Piscataway, NJ United States: IEEE. doi: 10.1109/ICIP.2013.6738214

Direct Inversion of Mojette Projections

2012

Journal Article

Recovering missing slices of the discrete fourier transform using ghosts

Chandra, Shekhar S., Svalbe, Imants D., Guedon, Jeanpierre, Kingston, Andrew M. and Normand, Nicolas (2012). Recovering missing slices of the discrete fourier transform using ghosts. IEEE Transactions on Image Processing, 21 (10) 6226457, 4431-4441. doi: 10.1109/TIP.2012.2206033

Recovering missing slices of the discrete fourier transform using ghosts

2012

Journal Article

Patient specific prostate segmentation in 3-D magnetic resonance images

Chandra, Shekhar S., Dowling, Jason A., Shen, Kai-Kai, Raniga, Parnesh, Pluim, Josien P. W., Greer, Peter B., Salvado, Olivier and Fripp, Jurgen (2012). Patient specific prostate segmentation in 3-D magnetic resonance images. IEEE Transactions On Medical Imaging, 31 (10) 6257497, 1955-1964. doi: 10.1109/TMI.2012.2211377

Patient specific prostate segmentation in 3-D magnetic resonance images

2012

Conference Publication

Unilateral hip joint segmentation with shape priors learned from missing data

Chandra, Shekhar, Xia, Yinq, Engstrom, Craig, Schwarz, Raphael, Lauer, Lars, Crozier, Stuart, Salvado, Olivier and Fripp, Jurgen (2012). Unilateral hip joint segmentation with shape priors learned from missing data. 9th IEEE International Symposium on Biomedical Imaging (ISBI), Barcelona, Spain, 2-5 March 2012. Piscataway, NJ, United States: IEEE. doi: 10.1109/ISBI.2012.6235909

Unilateral hip joint segmentation with shape priors learned from missing data

2012

Conference Publication

Morphology-based interslice interpolation on manual segmentations of joint bones and muscles in MRI

Yang, Zhengyi, Crozier, Stuart, Engstrom, Craig, Xia, Ying, Neubert, Ales, Brancato, Tania, Schwarz, Raphael, Lauer, Lars, Fripp, Jurgen, Chandra, Shekhar and Salvado, Olivier (2012). Morphology-based interslice interpolation on manual segmentations of joint bones and muscles in MRI. 2012 International Conference on Digital Image Computing Techniques and Applications (DICTA), Fremantle, WA, Australia, 3-5 December 2012. Piscataway, NJ, United States: IEEE. doi: 10.1109/DICTA.2012.6411678

Morphology-based interslice interpolation on manual segmentations of joint bones and muscles in MRI

2012

Conference Publication

Automated bone segmentation and bone-cartilage interface extraction from MR images of the hip

Xia, Ying, Chandra, Shakes, Salvado, Oliver, Fripp, Jurgen, Schwartz, Raphael, Lauer, Lars, Engstrom, Craig M. and Crozier, Stuart (2012). Automated bone segmentation and bone-cartilage interface extraction from MR images of the hip. International Society for Magnetic Resonance in Medicine, Melbourme, VIC, Australia, 5-11 May 2012.

Automated bone segmentation and bone-cartilage interface extraction from MR images of the hip

2011

Conference Publication

Automated MR hip bone segmentation

Xia, Ying, Chandra, Shakes, Salvado, Olivier, Fripp, Jurgen, Schwarz, Raphael, Lauer, Lars, Engstrom, Craig and Crozier, Stuart (2011). Automated MR hip bone segmentation. International Conference on Digital Image Computing Techniques and Applications (DICTA), Noosa, QLD, Australia, 6-8 December 2011. Piscataway, NJ, United States: IEEE. doi: 10.1109/DICTA.2011.13

Automated MR hip bone segmentation

2011

Conference Publication

Growth of Discrete Projection Ghosts Created by Iteration

Svalbe, Imants and Chandra, Shekhar (2011). Growth of Discrete Projection Ghosts Created by Iteration. 16th International Conference on Discrete Geometry for Computer Imagery, Nancy France, 6 - 8 April 2011. Heidelberg, Germany: Springer. doi: 10.1007/978-3-642-19867-0_34

Growth of Discrete Projection Ghosts Created by Iteration

2011

Conference Publication

Fast automatic multi-atlas segmentation of the prostate from 3D MR images

Dowling, Jason A., Fripp, Jurgen, Chandra, Shekhar, Pluim, Josien P. W., Lambert, Jonathan, Parker, Joel, Denham, James, Greer, Peter B. and Salvado, Olivier (2011). Fast automatic multi-atlas segmentation of the prostate from 3D MR images. 14th International Conference on Medical Image Computing and Computer-Assisted Intervention (MICCAI 2011), Toronto, Canada, 18-22 September 2011. Heidelberg, Germany: Springer. doi: 10.1007/978-3-642-23944-1_2

Fast automatic multi-atlas segmentation of the prostate from 3D MR images

2011

Conference Publication

Automatic segmentation of the prostate in 3D magnetic resonance images using case specific deformable models

Chandra, Shekhar, Dowling, Jason, Shen, Kaikai, Pluim, Josien, Greer, Peter, Salvado, Olivier and Fripp, Jurgen (2011). Automatic segmentation of the prostate in 3D magnetic resonance images using case specific deformable models. International Conference on Digital Image Computing: Techniques and Applications, DICTA 2011, Noosa Heads, Qld., Australia, 6-8 December 2011. Piscataway, NJ, United States: I E E E. doi: 10.1109/DICTA.2011.10

Automatic segmentation of the prostate in 3D magnetic resonance images using case specific deformable models

2010

Conference Publication

On constructing minimal ghosts

Svalbe, Imants, Nazareth, Nikesh, Chandra, Shekhar and Normand, Nicolas (2010). On constructing minimal ghosts. International Conference on Digital Image Computing: Techniques and Applications, DICTA 2010, Sydney, NSW Australia, 01 - 03 December 2010. Piscataway, NJ United States: I E E E. doi: 10.1109/DICTA.2010.56

On constructing minimal ghosts

2010

Other Outputs

Circulant theory of the Radon transform

Chandra, Shekhar Suresh (2010). Circulant theory of the Radon transform. PhD Thesis, Faculty of Science, School of Physics, Monash University.

Circulant theory of the Radon transform

2009

Conference Publication

A fast number theoretic finite radon transform

Chandra, S. and Svalbe, I. (2009). A fast number theoretic finite radon transform. Digital Image Computing: Techniques and Applications, DICTA 2009, Melbourne, VIC Australia, 1 - 3 December 2009. Piscataway, NJ United States: I E E E. doi: 10.1109/DICTA.2009.67

A fast number theoretic finite radon transform

2008

Conference Publication

An exact, non-iterative Mojette inversion technique utilising ghosts

Chandra, Shekhar, Svalbe, Imants and Guedon, Jean-Pierre (2008). An exact, non-iterative Mojette inversion technique utilising ghosts. 14th International Conference on Discrete Geometry for Computer Imagery, Lyon, France, 16 - 18 April 2008. Heidelberg, Germany: Springer. doi: 10.1007/978-3-540-79126-3_36

An exact, non-iterative Mojette inversion technique utilising ghosts

2008

Conference Publication

A method for removing cyclic artefacts in discrete tomography using latin squares

Chandra, Shekhar and Svalbe, Imants (2008). A method for removing cyclic artefacts in discrete tomography using latin squares. 19th International Conference on Pattern Recognition (ICPR 2008), Tampa, Fl United States, 8 - 11 Dec 2008. Washington, DC United States: I E E E Computer Society. doi: 10.1109/ICPR.2008.4761615

A method for removing cyclic artefacts in discrete tomography using latin squares

2006

Journal Article

Quantised angular momentum vectors and projection angle distributions for discrete radon transformations

Svalbe, Imants, Chandra, Shekhar, Kingston, Andrew and Guedon, Jean-Pierre (2006). Quantised angular momentum vectors and projection angle distributions for discrete radon transformations. Discrete Geometry for Computer Imagery, Proceedings, 4245, 134-145.

Quantised angular momentum vectors and projection angle distributions for discrete radon transformations

2006

Conference Publication

Quantised angular momentum vectors and projection angle distributions for discrete radon transformations

Svalbe, Imants, Chandra, Shekhar, Kingston, Andrew and Guédon, Jean-Pierre (2006). Quantised angular momentum vectors and projection angle distributions for discrete radon transformations. 13th International Conference on Discrete Geometry for Computer Imagery, DGCI 2006, , , October 25, 2006-October 27, 2006. Springer Verlag. doi: 10.1007/11907350_12

Quantised angular momentum vectors and projection angle distributions for discrete radon transformations

Current funding

  • 2022 - 2025
    Advancing the visualisation and quantification of nephrons with MRI
    ARC Discovery Projects
    Open grant
  • 2020 - 2026
    PREDICT-TBI - PREdiction and Diagnosis using Imaging and Clinical biomarkers Trial in Traumatic Brain Injury: the value of Magnetic Resonance Imaging
    NHMRC MRFF Traumatic Brain Injury Mission
    Open grant

Past funding

  • 2022 - 2025
    Robust, valid and interpretable deep learning for quantitative imaging
    ARC Linkage Projects
    Open grant
  • 2021 - 2024
    ChondralHealth Productization: Automated Musculoskeletal MR Image Analysis Algorithms
    Siemens Healthcare Pty Ltd
    Open grant
  • 2021 - 2024
    Osteoarthritis Compass: Personalized prediction of disease onset and progression. (NHMRC Ideas Grant administered by Griffith University)
    Griffith University
    Open grant
  • 2018 - 2022
    MR Hip Intervention and Planning System to enhance clinical and surgical outcomes
    NHMRC Development Grant
    Open grant

Availability

Dr Shakes Chandra is:
Available for supervision

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Available projects

  • Machine learning applied to 3D magnetic resonance images

    Magnetic resonance (MR) imaging has become an important non-invasive radiological modality for various clinical applications, such as cartilage assessment for Osteoarthritis and treatment planning for prostate cancer. MR images in 3D, while providing a wealth of anatomical information, including bones and soft tissue, are difficult to analyse due to the presence of a large number of complex structures. Thus, extracting meaningful clinical information without human interaction is a challenging task. Developing such automatic methods are important in order to reduce human errors and the time taken by clinicians in completing mundane tasks, such as marking or delineating 3D images by hand, from hours to just a few minutes by utilising computers.

    In this project, the student will develop novel algorithms to solve segmentation and detection problems for MR imaging that could possibly be deployed to MRI scanners and may eventually used for diagnostic purposes. The project will involve applying computer vision and machine learning techniques (including deep learning) to MR image processing and analysis.

Supervision history

Current supervision

Completed supervision

Enquiries

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