Muhammad Shaban - Harvard University

Muhammad Shaban

167, A Block, BOR Society, Lahore, Pakistan | m.shaban@warwick.ac.uk |

Summary

My research is focused on the development of novel artificial intelligence (AI) based methods to leverage the domain specific information available in multi-gigapixel digitized histology images of cancerous tissue samples to solve computational pathology problems and develop new digital biomarkers.

Education

PhD | 2016-2020 | Department of Computer Science at University of Warwick, UK ? Research Areas: Computational Pathology, Multi-Gigapixel Histology Image Analysis, Deep Learning ? Research Lab: Tissue Image Analytics (TIA) Lab

MS in CS | 2013-2015 | Lahore University of Management Sciences (LUMS), Pakistan ? Research Domain: Image Processing and Computer Vision ? Position: 2nd in Class of 40 with CGPA 3.85 out of 4.0

BS in CS | 2007-2011 | Punjab University College of Information Technology, Pakistan ? Final Year Project: Agile Project Management Tool ? Position: 2nd in Class of 45 with CGPA 3.67 out of 4.0

Experience

Teaching Assistant | University of Warwick | 2016-2020 ? Computational Biology ? Computer Graphics ? Programming for Computer Scientists

Research Assistant | Qatar University | 2015-2016 ? Research Project: Counting and Tracking of Individuals in Extremely Dense Crowds ? Camelyon16 Challenge: Breast Cancer Metastases Detection in Lymph Nodes

Software Engineer | Techlogix Pvt. Ltd | 2011-2013 ? I worked as a developer on multiple projects, mainly on front end development using JSP and Javascript

technologies.

Skill Set

? Key Interests: Neural Networks, Machine Learning, Whole Slide Image Analysis, Digital Cancer Marker ? Languages: Python ? Deep Learning Libraries: Keras, Tensorflow, PyTorch

Projects & Certifications

? Context-aware CNN for Colorectal Cancer Grading ? Digital Biomarker for Disease-free Survival of Oral Squamous Cell Carcinoma Patients ? Digital Biomarker for Disease-specific Survival of Head & Neck Squamous Cell Carcinoma Patients ? Deep Learning Specialization from Coursera

List of References

PHD SUPERVISOR Prof. Nasir M. Rajpoot Department of Computer Science, University of Warwick, UK Head of Tissue Image Analytics Lab at Warwick Turing Fellow at Alan Turing Institute, UK Email: n.m.rajpoot@warwick.ac.uk

CLINICAL COLLABORATOR Dr. Syed Ali Khurram School of Clinical Dentistry, The University of Sheffield, UK Senior Clinical Lecturer and Consultant Pathologist Email: s.a.khurram@sheffield.ac.uk

TECHNICAL COLLABORATORS Prof. David Epstein Fellow of the Royal Society Mathematics Institute, University of Warwick, UK Email: david.epstein@warwick.ac.uk

Prof. Arif Mahmood Information Technology University, Pakistan Email: arif.mahmood@itu.edu.pk

Associate Prof. Muhammad Moazam Fraz Rutherford Visiting Fellow at Alan Turing Institute, UK School of Electrical Engineering and Computer Science (SEECS), National University of Sciences and Technology (NUST), Pakistan Email: moazam.fraz@seecs.edu.pk

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List of Publications

Journal Papers ? Muhammad Shaban, Ruqayya Awan, Muhammad Moazam Fraz, Ayesha Azam, David Snead, and Nasir

M. Rajpoot. "Context-Aware Convolutional Neural Network for Grading of Colorectal Cancer Histology Images." IEEE Transactions on Medical Imaging (2020). Impact Factor: 9.710

? Muhammad Shaban, Syed Ali Khurram, Muhammad Moazam Fraz, Najah Alsubaie, Iqra Masood, Sajid Mushtaq, Mariam Hassan, Asif Loya, and Nasir M. Rajpoot. "A novel Digital Score for Abundance of Tumour Infiltrating Lymphocytes predicts Disease free Survival in oral Squamous cell carcinoma." Scientific reports 9, no. 1 (2019): 1-13. Impact Factor: 4.120

? Muhammad Shaban, Arif Mahmood, Somaya Ali Al-Maadeed, and Nasir Rajpoot. "An information fusion framework for person localization via body pose in spectator crowds." Information Fusion 51 (2019): 178-188. Impact Factor: 13.200

? Hanya Mahmood, H., Muhammad Shaban, B. I. Indave, A. R. Santos-Silva, Nasir Rajpoot, and Syed Ali Khurram. "Use of artificial intelligence in diagnosis of head and neck precancerous and cancerous lesions: A systematic review." Oral Oncology 110 (2020): 104885. Impact Factor: 3.98

? Shan E. Ahmed Raza, Linda Cheung, Muhammad Shaban, Simon Graham, David Epstein, Stella Pelengaris, Michael Khan, and Nasir M. Rajpoot. "Micro-Net: A unified model for segmentation of various objects in microscopy images." Medical image analysis 52 (2019): 160-173. Impact Factor: 11.280.

? Muhammad Moazam Fraz, Syed Ali Khurram, Simon Graham, Muhammad Shaban, Mariam Hassan, Asif Loya, and Nasir M. Rajpoot. "FABnet: feature attention-based network for simultaneous segmentation of microvessels and nerves in routine histology images of oral cancer." Neural Computing and Applications: 1-14. Impact Factor: 4.668.

? Babak E. Bejnordi, Mitko Veta , ..., Muhammad Shaban, N. Rajpoot, ..., "Diagnostic Assessment of Deep Learning Algorithms for Detection of Lymph Node Metastases in Women with Breast Cancer" JAMA. 2017;318(22):2199?2210. doi:10.1001/jama.2017.14585. Impact Factor: 47.700

Conference Papers ? Najah Alsubaie, Muhammad Shaban, David Snead, Ali Khurram, and Nasir Rajpoot. "A Multi-resolution

Deep Learning Framework for Lung Adenocarcinoma Growth Pattern Classification." In Annual Conference on Medical Image Understanding and Analysis, pp. 3-11. Springer, Cham, 2018.

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? Graham, Simon, Muhammad Shaban, Talha Qaiser, Navid Alemi Koohbanani, Syed Ali Khurram, and Nasir Rajpoot. "Classification of lung cancer histology images using patch-level summary statistics." In Medical Imaging 2018: Digital Pathology, vol. 10581, p. 1058119. International Society for Optics and Photonics, 2018.

? R. M. Saad Bashir, Hanya Mahmood, Muhammad Shaban, Shan E. Ahmed Raza, M. Moazam Fraz, Syed Ali Khurram, Nasir M. Rajpoot, "Automated grade classification of oral epithelial dysplasia using morphometric analysis of histology images," Proc. SPIE 11320, Medical Imaging 2020: Digital Pathology, 1132011 (2020)

? Ruqayya Awan, Navid Alemi Koohbanani, Muhammad Shaban, Anna Lisowska, and Nasir Rajpoot. "Context-aware learning using transferable features for classification of breast cancer histology images." In International Conference Image Analysis and Recognition, pp. 788-795. Springer, Cham, 2018.

Workshop Papers ? Muhammad Shaban, Arif Mahmood, Somaya Al-maadeed, and Nasir Rajpoot. "Multi-person head

segmentation in low resolution crowd scenes using convolutional encoder-decoder framework." In International Workshop on Representations, Analysis and Recognition of Shape and Motion From Imaging Data, pp. 82-92. Springer, Cham, 2017.

? Abhinav Agarwalla, Muhammad Shaban, and Nasir M. Rajpoot. "Representation-aggregation networks for segmentation of multi-gigapixel histology images." arXiv preprint arXiv:1707.08814 (2017).

? Muhammad Moazam Fraz, Muhammad Shaban, Simon Graham, Syed Ali Khurram, and Nasir M. Rajpoot. "Uncertainty Driven Pooling Network for Microvessel Segmentation in Routine Histology Images." In Computational Pathology and Ophthalmic Medical Image Analysis, pp. 156-164. Springer, Cham, 2018..

? Koohbanani, Navid Alemi, Talha Qaisar, Muhammad Shaban, Jevgenij Gamper, and Nasir Rajpoot. "Significance of Hyperparameter Optimization for Metastasis Detection in Breast Histology Images." In Computational Pathology and Ophthalmic Medical Image Analysis, pp. 139-147. Springer, Cham, 2018..

? Zhou, Yanning, Simon Graham, Navid Alemi Koohbanani, Muhammad Shaban, Pheng-Ann Heng, and Nasir Rajpoot. "CGC-Net: Cell Graph Convolutional Network for Grading of Colorectal Cancer Histology Images." In Proceedings of the IEEE International Conference on Computer Vision Workshops, pp. 0-0. 2019.

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Abstracts ? Muhammad Shaban, Syed Ali Khurram, Mariam Hassan, Sajid Mushtaq, Asif Loya, and Nasir Rajpoot.

"Prognostic significance of automated score of tumor infiltrating lymphocytes in oral cancer." (2018): e18036-e18036.. ? Arif Mahmood, Muhammad Shaban, Haroon Idrees, Nasir M. Rajpoot, and Mubarak Shah. "Pose Detection for Partially Occluded Persons in Spectator Crowds." In Qatar Foundation Annual Research Conference Proceedings Volume 2016 Issue 1, vol. 2016, no. 1, p. SSHAPP3413. Hamad bin Khalifa University Press (HBKU Press), 2016.

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