Evaluation of an ad hoc model of detection physics for navigated beta-probe surface imaging. - Dzhoshkun I. Shakir; Alexander Hartl; Nassir Navab; Sibylle Ilse Ziegler (Image-Guided Procedures, 2011)

Towards Intra-operative PET for Head and Neck Cancer: Lymph Node Localization Using High-Energy Probes. - Dzhoshkun I. Shakir; Asli Okur; Alexander Hartl; Philipp Matthies; Sibylle Ilse Ziegler; Markus Essler; Tobias Lasser; Nassir Navab (MICCAI (1), 2012)

Freehand SPECT reconstructions using look up tables. - Alexander Hartl; Dzhoshkun I. Shakir; Risto Kojchev; Nassir Navab; Sibylle Ilse Ziegler; Tobias Lasser (Image-Guided Procedures, 2012)

Two new ad-hoc models of detection physics and their evaluation for navigated beta probe surface imaging. - Dzhoshkun I. Shakir; Alexander Hartl; Florian R. Schneider; Jozef Pulko; Sibylle Ilse Ziegler; Nassir Navab; Tobias Lasser (Image-Guided Procedures, 2012)

Freehand Tomographic Nuclear Imaging Using Tracked High-Energy Gamma Probes. - Asli Okur; Dzhoshkun I. Shakir; Philipp Matthies; Alexander Hartl; Sibylle Ilse Ziegler; Markus Essler; Tobias Lasser; Nassir Navab (Bildverarbeitung für die Medizin, 2013)

Intra-operative Nuclear Imaging Based on Positron-emitting Radiotracers (Intra-operative Nuklearmedizinische Bildgebung anhand Positronen-emittierender radioaktiver Tracer) - Dzhoshkun Ismail Shakir (2014)

A Combined EM and Visual Tracking Probabilistic Model for Robust Mosaicking: Application to Fetoscopy. - Marcel Tella-Amo; Pankaj Daga; François Chadebecq; Stephen A. Thompson; Dzhoshkun I. Shakir; George Dwyer; Ruwan Wimalasundera; Jan Deprest; Danail Stoyanov; Tom Vercauteren; Sébastien Ourselin (CVPR Workshops, 2016)

Real-time mosaicing of fetoscopic videos using SIFT. - Pankaj Daga; François Chadebecq; Dzhoshkun I. Shakir; Luis Carlos García-Peraza-Herrera; Marcel Tella; George Dwyer; Anna L. David; Jan Deprest; Danail Stoyanov; Tom Vercauteren; Sébastien Ourselin (Image-Guided Procedures, 2016)

Partition-based acquisition model for speed up navigated beta-probe surface imaging. - Frédéric Monge; Dzhoshkun I. Shakir; Nassir Navab; Pierre Jannin (Image-Guided Procedures, 2016)

Acquisition models in intraoperative positron surface imaging. - Frederic Monge; Dzhoshkun I. Shakir; Florence Lejeune; Xavier Morandi; Nassir Navab; Pierre Jannin (Int. J. Comput. Assist. Radiol. Surg., 2017)

GIFT-Cloud: A data sharing and collaboration platform for medical imaging research. - Tom Doel; Dzhoshkun I. Shakir; Rosalind Pratt; Michael Aertsen; James Moggridge; Erwin Bellon; Anna L. David; Jan Deprest; Tom Vercauteren; Sébastien Ourselin (Comput. Methods Programs Biomed., 2017)

NiftyNet: a deep-learning platform for medical imaging. - Eli Gibson; Wenqi Li 001; Carole H. Sudre; Lucas Fidon; Dzhoshkun I. Shakir; Guotai Wang; Zach Eaton-Rosen; Robert J. Gray; Tom Doel; Yipeng Hu; Tom Whyntie; Parashkev Nachev; et al. (CoRR, 2017)

Bruker2nifti: Magnetic Resonance Images converter from Bruker ParaVision to Nifti format. - Sebastiano Ferraris; Dzhoshkun Ismail Shakir; Johannes L. van der Merwe; Willy Gsell; Jan Deprest; Tom Vercauteren (J. Open Source Softw., 2017)

Technical note: probabilistic visual and electromagnetic data fusion for robust drift-free sequential mosaicking. Application to fetoscopy. - Marcel Tella-Amo; Loïc Peter; Dzhoshkun I. Shakir; Jan Deprest; Danail Stoyanov; Juan Eugenio Iglesias; Tom Vercauteren; Sébastien Ourselin (Image-Guided Procedures, 2018)

Retrieval and registration of long-range overlapping frames for scalable mosaicking of in vivo fetoscopy. - Loïc Peter; Marcel Tella-Amo; Dzhoshkun Ismail Shakir; George Attilakos; Ruwan Wimalasundera; Jan Deprest; Sébastien Ourselin; Tom Vercauteren (Int. J. Comput. Assist. Radiol. Surg., 2018)

Effective deep learning training for single-image super-resolution in endomicroscopy exploiting video-registration-based reconstruction. - Daniele Ravì; Agnieszka Barbara Szczotka; Dzhoshkun Ismail Shakir; Stephen P. Pereira; Tom Vercauteren (Int. J. Comput. Assist. Radiol. Surg., 2018)

NiftyNet: a deep-learning platform for medical imaging. - Eli Gibson; Wenqi Li 001; Carole H. Sudre; Lucas Fidon; Dzhoshkun I. Shakir; Guotai Wang; Zach Eaton-Rosen; Robert J. Gray; Tom Doel; Yipeng Hu; Tom Whyntie; Parashkev Nachev; et al. (Comput. Methods Programs Biomed., 2018)

Learning from irregularly sampled data for endomicroscopy super-resolution: a comparative study of sparse and dense approaches. - Agnieszka Barbara Szczotka; Dzhoshkun Ismail Shakir; Daniele Ravì; Matthew J. Clarkson; Stephen P. Pereira; Tom Vercauteren (Int. J. Comput. Assist. Radiol. Surg., 2020)

Active Annotation of Informative Overlapping Frames in Video Mosaicking Applications. - Loïc Peter; Marcel Tella-Amo; Dzhoshkun Ismail Shakir; Jan Deprest; Sébastien Ourselin; Juan Eugenio Iglesias; Tom Vercauteren (CoRR, 2020)

Zero-Shot Super-Resolution With a Physically-Motivated Downsampling Kernel for Endomicroscopy. - Agnieszka Barbara Szczotka; Dzhoshkun Ismail Shakir; Matthew J. Clarkson; Stephen P. Pereira; Tom Vercauteren (IEEE Trans. Medical Imaging, 2021)

Intraoperative Needle Tip Tracking with an Integrated Fibre-Optic Ultrasound Sensor. - Christian Baker; Miguel Xochicale; Fang-Yu Lin; Sunish Mathews; Francois Joubert; Dzhoshkun I. Shakir; Richard Miles; Charles A. Mosse; Tianrui Zhao; Weidong Liang; Yada Kunpalin; Brian Dromey; et al. (Sensors, 2022)