Perelman School of Medicine at the University of Pennsylvania

Section for Biomedical Image Analysis (SBIA)

Saima Rathore, PhD


Postdoctoral Researcher

Section of Biomedical Image Analysis
Center for Biomedical Image Computing & Analytics
Department of Radiology
Perelman School of Medicine
University of Pennsylvania

Richards Medical Research Laboratories, Floor 7
3700 Hamilton Walk
Philadelphia, PA 19104
fax: (001) 215.573.1811
email: Saima.rathore@uphs.upenn.edu

Educational Qualifications

Ph.D. in Computer Science (specialization: Medical Image Computing & Analysis) – Pakistan Institute of Engineering and Applied Sciences (Islamabad, Pakistan)

M.S. in Computer Engineering (specialization: Computer Networks) - University of Engineering and Technology (Taxila, Pakistan)

B.S. in Software Engineering  (specialization: Computer Networks) – Fatima Jinnah Women University (Rawalpindi, Pakistan)

Research Summary

 

Publications

Journals

  1. Saima Rathore, Mutawarra Hussain, Ahmad Ali, Asifullah Khan, "A recent survey on colon cancer detection techniques", IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 10, no 03, 545-563, 2013  (Publisher's Version)
  2. Saima Rathore, Mutawarra Hussain, Asifullah Khan, "GECC: Gene expression based ensemble classification of colon samples", IEEE/ACM Transactions on Computational Biology and Bioinformatics, vol. 11, no 06, 1131-1145, 2014 (Publisher's Version)
  3. Saima Rathore, Mutawarra Hussain, Muhammad Aksam Iftikhar, Abdul Jalil, "Ensemble classification of colon biopsy images based on information rich hybrid features", Computers in Biology and Medicine, vol. 47, 76-92, 2014 (Publisher's Version)
  4. Saima Rathore, Mutawarra Hussain, Muhammad Aksam Iftikhar, Abdul Jalil, "Novel structural descriptors for automated colon cancer detection and grading", Computer Methods and Programs in Biomedicine, vol. 121, no. 02, 92-108, 2015 (Publisher's Version)
  5. Muhammad Aksam Iftikhar, Abdul Jalil, Saima Rathore, Ahmad Ali, Mutawarra Hussain, "Brain MRI denoizing and segmentation based on improved adaptive non-local means", International Journal of Imaging Systems and technology, vol. 23, no. 03, 235-248, 2013 (Publisher's Version)
  6. Saima Rathore, Mutawarra Hussain, Asifullah Khan, "Automated colon cancer detection using hybrid of novel geometric features and some traditional features", Computers in Biology and Medicine, 2015 (Publisher's Version)
  7. Muhammad Aksam Iftikhar, Abdul Jalil, Saima Rathore, Mutawarra Hussain, "Robust brain MRI denoizing and segmentation using enhanced non-local means", International Journal of Imaging Systems and technology, vol. 23, no. 01, 52-66, 2014 (Publisher's Version)
  8. Muhammad Aksam Iftikhar, Abdul Jalil, Saima Rathore, Ahmad Ali, Mutawarra Hussain, "An extended non-local means algorithm: Application to brain MRI", International Journal of Imaging Systems and technology, vol. 24, no. 04, 293-305, 2014 (Publisher's Version)
  9. Ahmad Ali, Ahmad, Jalil, Abdul, Jianwei Niu, Xiaoke Zhao, Saima Rathore, Javed Ahmed, Muhammad Aksam Iftikhar, “Visual object tracking—classical and contemporary approaches”, Frontiers of Computer Science, vol. 10, no.1, 167-188, 2016.

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Conferences

  1. Ke Zeng, Spyridon Bakas, Aristeidis Sotiras, Hamed Akbari, Martin Rozycki, Saima Rathore, Sarthak Pati, Christos Davatzikos, "Segmentation of Gliomas in Pre-Operative and Post-Operative Multimodal Magnetic Resonance Imaging Volumes Based on a Hybrid Generative-Discriminative Framework", In Proceedings of the Multimodal Brain Tumor Image Segmentation Challenge held in conjunction with MICCAI 2016 (MICCAI-BRATS 2016), (Athens, Greece, 17-21 Oct 2016)
  2. Spyridon Bakas, Ke Zeng, Aristeidis Sotiras, Saima Rathore, Hamed Akbari, Bilwaj Gaonkar, Martin Rozycki, Sarthak Pati, Christos Davatzikos, "GLISTRboost: Combining Multimodal MRI Segmentation, Registration, and Biophysical Tumor Growth Modeling with Gradient Boosting Machines for Glioma Segmentation", Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries, Springer, LNCS, 9556:144-155, 2016. DOI: 10.1007/978-3-319-30858-6_13 (Technische Universität München (T.U.M.), Munich, Germany, 5-9 Oct 2015) (Publisher's Version)
  3. Spyridon Bakas, Ke Zeng, Aristeidis Sotiras, Saima Rathore, Hamed Akbari, Bilwaj Gaonkar, Martin Rozycki, Sarthak Pati, Christos Davatzikos, "Segmentation of Gliomas in Multimodal Magnetic Resonance Imaging Volumes Based on a Hybrid Generative-Discriminative Framework", In Proceedings of the Multimodal Brain Tumor Image Segmentation Challenge held in conjunction with MICCAI 2015 (MICCAI-BRATS 2015),(Technische Universität München (T.U.M.), Munich, Germany, 5-9 Oct 2015)
  4. Saima Rathore, Muhammad Aksam Iftikhar, Mutawarra Hussain, Abdul Jalil, "Texture analysis for liver segmentation and classification: a survey", IEEE International Conference on Frontiers of Information Technology, 2011 Islamabad, Pakistan (Publisher's Version)
  5. Saima Rathore, Muhammad Aksam Iftikhar, Mutawarra Hussain, Abdul Jalil, "Classification of colon biopsy images based on novel structural features", IEEE 9th International Conference on Emerging Technologies, 2013 Islamabad, Pakistan (Publisher's Version)
  6. Saima Rathore, Mutawarra Hussain, Asifullah Khan "A novel approach for colon biopsy image segmentation", IEEE International Conference on Complex Medical Engineering, 2013 Beijing, China (Publisher's Version)
  7. Muhammad Aksam Iftikhar, Saima Rathore, Abdul Jalil, Mutawarra Hussain, "A novel extension to non-local means algorithm: Application to brain MRI denoising",IEEE 16th International Multi-Topic Conference, 2013 Islamabad, Pakistan (Publisher's Version)
  8. Saima Rathore, Muhammad Aksam Iftikhar, Mutawarra Hussain, Abdul Jalil, "A novel approach for ensemble clustering of colon biopsy images", IEEE 11th International Conference on Frontiers of Information Technology, 2013 Islamabad, Pakistan (Publisher's Version)
  9. Saima Rathore, Muhammad Aksam Iftikhar, Ahmad Ali, Mutawarra Hussain, Abdul Jalil, "Capture largest included circles: An approach for counting red blood cells",Springer Berlin Heidelberg International Conference on Emerging Trends and Applications in Infromation Communication Technologies, 2012 Jamshoro, Pakistan (Publisher's Version)
  10. Muhammad Aksam Iftikhar, Saima Rathore, Abdul Jalil, "Parameter optimization for non-local denoising using elite GA", IEEE 15th International Multi-Topic Conference, 2012 Islamabad, Pakistan  (Publisher's Version)
  11. Saima Rathore, Muhammad Aksam Iftikhar, Mutawarra Hussain, "A novel approach for automatic gene selection and classification of gene based colon cancer datasets",IEEE 10th International Conference on Emerging Technologies, 2014 Islamabad, Pakistan (Publisher's Version)
  12. Madeeha Naiyar, Adeel Akram, Saima Rathore, "A reliable proxy based vertical handover mechanism between WLAN and EVDO networks", IEEE 9th International Conference on Emerging Technologies, 2013 Islamabad, Pakistan (Publisher's Version)
  13. Saima Rathore, Madeeha Naiyar, Ahmad Ali, "Comparative study of entity and group mobility models in MANeT's based on underlying reactive, proactive and hybrid routing schemes", IEEE 15th International Multi-Topic Conference, 2012 Islamabad, Pakistan  (Publisher's Version)

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Software

Horus

Horus is a real-time solution that locates a fleet using GPS, GSM and Satellite services. Horus is basically an integrated vehicle management system comprising vehicle mounted GPS-based tracking devices, communicating over multiple networking technologies in a hybrid environment and versatile multi-tier command and control infrastructure. It comprehensively addresses the problem of managing, tracking, monitoring and assisting the vehicles registered with the system.

NGN-VoIP_Monitoring

NGN-VoIP_Monitoring is a highly modular and scalable lawful interception solution to fullfil LEA requirements for telecommunication services surveillance and voice forensics over telecommunication networks for intelligence gathering in order to prevent terrorism and to promote criminal prosecution.

Brain Tumor Viewer

Brain tumor viewer is a tool for visualizing multi-modal brain MRI images and making manual annotations on those images. The brain tumor viewer is mainly used for creating initializations for brain tumor segmentation and registration algorithms such as GLioma Image Segmentation and registration (GLISTR) and Pre-Operative and post-Recurrence brain Tumor registration (PORTR).