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Register a new userAutomatic techniques for cochlear implant CT image analysis
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Yiyuan Zhao
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The goals of this dissertation are to fully automate the image processing techniques needed in the post-operative stage of IGCIP and to perform a thorough analysis of (a) the robustness of the automatic image processing techniques used in IGCIP and (b) assess the sensitivity of the IGCIP process as a whole to individual components. The automatic methods that have been developed include the automatic localization of both closely- and distantly-spaced CI electrode arrays in post-implantation CTs and the automatic selection of electrode configurations based on the stimulation patterns. Together with the existing automatic techniques developed for IGCIP, the proposed automatic methods enable an end-to-end IGCIP process that takes pre- and post-implantation CT images as input and produces a patient-customized electrode configuration as output.
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Cochlear implants (CIs) are a standard treatment for patients who experience severe to profound hearing loss. Recent studies have shown that hearing outcome is correlated with intra-cochlear anatomy and electrode placement. Our group has developed image-guided CI programming (IGCIP) techniques that use image analysis methods to both segment the inner ear structures in pre- or post-implantation CT images and localize the CI electrodes in post-implantation CT images. This permits to assist audiologists with CI programming by suggesting which among the contacts should be deactivated to reduce electrode interaction that is known to affect outcomes. Clinical studies have shown that IGCIP can improve hearing outcomes for CI recipients. However, the sensitivity of IGCIP with respect to the accuracy of the two major steps: electrode localization and intra-cochlear anatomy segmentation, is unknown. In this article, we create a ground truth dataset with conventional CT and micro-CT images of 35 temporal bone specimens to both rigorously characterize the accuracy of these two steps and assess how inaccuracies in these steps affect the overall results. Our study results show that when clinical pre- and post-implantation CTs are available, IGCIP produces results that are comparable to those obtained with the corresponding ground truth in 86.7% of the subjects tested. When only post-implantation CTs are available, this number is 83.3%. These results suggest that our current method is robust to errors in segmentation and localization but also that it can be improved upon. Keywords: cochlear implant, ground truth, segmentation, validation
Cytology is the branch of pathology which deals with the microscopic examination of cells for diagnosis of carcinoma or inflammatory conditions. Automation in cytology started in the early 1950s with the aim to reduce manual efforts in diagnosis of cancer. The inflush of intelligent technological units with high computational power and improved specimen collection techniques helped to achieve its technological heights. In the present survey, we focus on such image processing techniques which put steps forward towards the automation of cytology. We take a short tour to 17 types of cytology and explore various segmentation and/or classification techniques which evolved during last three decades boosting the concept of automation in cytology. It is observed, that most of the works are aligned towards three types of cytology: Cervical, Breast and Lung, which are discussed elaborately in this paper. The user-end systems developed during that period are summarized to comprehend the overall growth in the respective domains. To be precise, we discuss the diversity of the state-of-the-art methodologies, their challenges to provide prolific and competent future research directions inbringing the cytology-based commercial systems into the mainstream.
While medical image segmentation is an important task for computer aided diagnosis, the high expertise requirement for pixelwise manual annotations makes it a challenging and time consuming task. Since conventional data augmentations do not fully represent the underlying distribution of the training set, the trained models have varying performance when tested on images captured from different sources. Most prior work on image synthesis for data augmentation ignore the interleaved geometric relationship between different anatomical labels. We propose improvements over previous GAN-based medical image synthesis methods by learning the relationship between different anatomical labels. We use a weakly supervised segmentation method to obtain pixel level semantic label map of images which is used learn the intrinsic relationship of geometry and shape across semantic labels. Latent space variable sampling results in diverse generated images from a base image and improves robustness. We use the synthetic images from our method to train networks for segmenting COVID-19 infected areas from lung CT images. The proposed method outperforms state-of-the-art segmentation methods on a public dataset. Ablation studies also demonstrate benefits of integrating geometry and diversity.
The extensive use of medical CT has raised a public concern over the radiation dose to the patient. Reducing the radiation dose leads to increased CT image noise and artifacts, which can adversely affect not only the radiologists judgement but also the performance of downstream medical image analysis tasks. Various low-dose CT denoising methods, especially the recent deep learning based approaches, have produced impressive results. However, the existing denoising methods are all downstream-task-agnostic and neglect the diverse needs of the downstream applications. In this paper, we introduce a novel Task-Oriented Denoising Network (TOD-Net) with a task-oriented loss leveraging knowledge from the downstream tasks. Comprehensive empirical analysis shows that the task-oriented loss complements other task agnostic losses by steering the denoiser to enhance the image quality in the task related regions of interest. Such enhancement in turn brings general boosts on the performance of various methods for the downstream task. The presented work may shed light on the future development of context-aware image denoising methods.
This paper strives to generate a synthetic computed tomography (CT) image from a magnetic resonance (MR) image. The synthetic CT image is valuable for radiotherapy planning when only an MR image is available. Recent approaches have made large strides in solving this challenging synthesis problem with convolutional neural networks that learn a mapping from MR inputs to CT outputs. In this paper, we find that all existing approaches share a common limitation: reconstruction breaks down in and around the high-frequency parts of CT images. To address this common limitation, we introduce frequency-supervised deep networks to explicitly enhance high-frequency MR-to-CT image reconstruction. We propose a frequency decomposition layer that learns to decompose predicted CT outputs into low- and high-frequency components, and we introduce a refinement module to improve high-frequency reconstruction through high-frequency adversarial learning. Experimental results on a new dataset with 45 pairs of 3D MR-CT brain images show the effectiveness and potential of the proposed approach. Code is available at url{https://github.com/shizenglin/Frequency-Supervised-MR-to-CT-Image-Synthesis}.
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