TRD 2 – DEEP LEARNING

Information theoretic approaches for weakly-supervised deep learning for image registration and segmentation.

Infrastructure for curating and organizing image data, annotations, and metadata for deep learning.

Application areas: multimodal image registration for MRI and ultrasound guided brain tumor resection, thoracoscopic lung surgery; cancer map prediction from sparse biopsy samples to guide transperineal in-bore MRI-guided prostate biopsy.

Mehrtash A, Ziegler E, Idris T, Somarouthu B, Urban T, LaCasce AS, Jacene H, Van Den Abbeele AD, Pieper S, Harris G, Kikinis R, Kapur T. Evaluation of Mediastinal Lymph Node Segmentation of Heterogeneous CT Data with Full and Weak Supervision. Comput Med Imaging Graph. 2024 Jan;111:102312. PMID: 38141568. PMC10807363.

Chrisochoides N, Liu Y, Drakopoulos F, Kot A, Foteinos P, Tsolakis C, Billias E, Clatz O, Ayache N, Fedorov A, Golby A, Black P, Kikinis R. Comparison of Physics-based Deformable Registration Methods for Image-guided Neurosurgery. Front Digit Health. 2023 Dec 8;5:1283726. PMID: 38144260. PMC10740151.

Safdar S, Zwick BF, Yu Y, Bourantas GC, Joldes GR, Warfield SK, Hyde DE, Frisken S, Kapur T, Kikinis R, Golby A, Nabavi A, Wittek A, Miller K. SlicerCBM: Automatic Framework for Biomechanical Analysis of the Brain. Int J Comput Assist Radiol Surg. 2023 Oct;18(10):1925-40. PMID: 37004646. PMC10497672.

Juvekar P, Dorent R, Kögl F, Torio E, Barr C, Rigolo L, Galvin C, Jowkar N, Kazi A, Haouchine N, Cheema H, Navab N, Pieper S, Wells WM, Bi WL, Golby A, Frisken S, Kapur T. ReMIND: The Brain Resection Multimodal Imaging Database. medRxiv [Preprint]. 2023 Sep 15:2023.09.14.23295596. PMID: 37745329. PMC10516086.

Chrisochoides N, Fedorov A, Liu Y, Kot A, Foteinos P, Drakopoulos F, Tsolakis C, Billias E, Clatz O, Ayache N, Golby A, Black P, Kikinis R. Real-Time Dynamic Data Driven Deformable Registration for Image-Guided Neurosurgery: Computational Aspects. ArXiv [Preprint]. 2023 Sep 6:arXiv:2309.03336v1. PMID: 37731651. PMC10508827.

Jiang L, Jowkar N, King F, Plishker W, Bhagavatula SK, Levesque VM, Kapur T, Shyn PB. PET/CT Fluoroscopy during PET/CT-Guided Interventions: Initial Experience. J Vasc Interv Radiol. 2023 Aug;34(8):1319-1323. PMID: 37142215. PMC10512656.

Bumm R, Zaffino P, Lasso A, Estépar RSJ, Pieper S, Wasserthal J, Spadea MF, Latshang T, Kawel-Böhm N, Wäckerlin A, Werner R, Hässig G, Furrer M, Kikinis R. From Voxels to Prognosis: AI-Driven Quantitative Chest CT Analysis Forecasts ICU Requirements in 78 COVID-19 Cases. Res Sq [Preprint]. 2023 Jul 5:rs.3.rs-3027617. PMID: 37333197. PMC10275043.

Kocak B, Baessler B, Bakas S, Cuocolo R, Fedorov A, Maier-Hein L, Mercaldo N, Müller H, Orlhac F, Pinto Dos Santos D, Stanzione a, Ugga L, Zwanenburg A. CheckList for EvaluAtion of Radiomics Research (CLEAR): A Step-by-Step Reporting Guideline for Authors and Reviewers Endorsed by ESR and EuSoMII. Insights Imaging. 2023 May 4;14(1):75. PMID: 37142815. PMC10160267.

Zheng J, Yang Q, Makris N, Huang K, Liang J, Ye C, Yu X, Tian M, Ma T, Mou T, Guo W, Kikinis R, Gao Y. Three-Dimensional Digital Reconstruction of the Cerebellar Cortex: Lobule Thickness, Surface Area Measurements, and Layer Architecture. Cerebellum. 2023 Apr;22(2):249-260. PMID: 35286708. PMC9470778.

Giganti F, Cole AP, Fennessy FM, Clinton T, Moreira PLDF, Bernardes MC, Westin CF, Krishnaswamy D, Fedorov A Wollin DA, Langbein B, Frego N, Labban M, Badaoui JS, Chang SL, Briggs LG, Tokuda J, Ambrosi A, Kirkham a, Emberton M, Kasivisvanathan V, Moore CM, Allen C, Tempany CM. Promoting the Use of the PI- QUAL Score for Prostate MRI Quality: Results From the ESOR Nicholas Gourtsoyiannis Teaching Fellowship. Eur Radiol. 2023 Jan;33(1):461-471. PMID: 35771247. PMC9244244.

Juvekar P, Torio E, Bi WL, Bastos DCA, Golby AJ, Frisken SF. Mapping Resection Progress by Tool-Tip Tracking During Brain Tumor Surgery for Real-Time Estimation of Residual Tumor. Cancers (Basel). 2023 Jan 29;15(3):825. PMID: 36765783. PMC9913508.

Kögl FV, Léger É, Haouchine N, Torio E, Juvekar P, Navab N, Kapur T, Pieper S, Golby A, Frisken S. A Tool-Free Neuronavigation Method Based on Single-View Hand Tracking. Comput Methods Biomech Biomed Eng Imaging Vis. 2023;11(4):1307-15. PMID: 37457380. PMC10348700.