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Register a new userPatient-specific fine-tuning of CNNs for follow-up lesion quantification
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Convolutional neural network (CNN) methods have been proposed to quantify lesions in medical imaging. Commonly more than one imaging examination is available for a patient, but the serial information in these images often remains unused. CNN-based methods have the potential to extract valuable information from previously acquired imaging to better quantify current imaging of the same patient. A pre-trained CNN can be updated with a patients previously acquired imaging: patient-specific fine-tuning. In this work, we studied the improvement in performance of lesion quantification methods on MR images after fine-tuning compared to a base CNN. We applied the method to two different approaches: the detection of liver metastases and the segmentation of brain white matter hyperintensities (WMH). The patient-specific fine-tuned CNN has a better performance than the base CNN. For the liver metastases, the median true positive rate increases from 0.67 to 0.85. For the WMH segmentation, the mean Dice similarity coefficient increases from 0.82 to 0.87. In this study we showed that patient-specific fine-tuning has potential to improve the lesion quantification performance of general CNNs by exploiting the patients previously acquired imaging.
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Over the past few years, different computer-aided diagnosis (CAD) systems have been proposed to tackle skin lesion analysis. Most of these systems work only for dermoscopy images since there is a strong lack of public clinical images archive available to design them. To fill this gap, we release a skin lesion benchmark composed of clinical images collected from smartphone devices and a set of patient clinical data containing up to 22 features. The dataset consists of 1,373 patients, 1,641 skin lesions, and 2,298 images for six different diagnostics: three skin diseases and three skin cancers. In total, 58.4% of the skin lesions are biopsy-proven, including 100% of the skin cancers. By releasing this benchmark, we aim to aid future research and the development of new tools to assist clinicians to detect skin cancer.
Convolutional Neural Networks (CNNs) have been used for automated detection of prostate cancer where Area Under Receiver Operating Characteristic (ROC) curve (AUC) is usually used as the performance metric. Given that AUC is not differentiable, common practice is to train the CNN using a loss functions based on other performance metrics such as cross entropy and monitoring AUC to select the best model. In this work, we propose to fine-tune a trained CNN for prostate cancer detection using a Genetic Algorithm to achieve a higher AUC. Our dataset contained 6-channel Diffusion-Weighted MRI slices of prostate. On a cohort of 2,955 training, 1,417 validation, and 1,334 test slices, we reached test AUC of 0.773; a 9.3% improvement compared to the base CNN model.
A patient-specific fluid-structure interaction (FSI) model of a phase-contrast magnetic resonance angiography (PC-MRA) imaged arteriovenous fistula is presented. The numerical model is developed and simulated using a commercial multiphysics simulation package where a semi-implicit FSI coupling scheme combines a finite volume method blood flow model and a finite element method vessel wall model. A pulsatile mass-flow boundary condition is prescribed at the artery inlet of the model, and a three-element Windkessel model at the artery and vein outlets. The FSI model is freely available for analysis and extension. This work shows the effectiveness of combining a number of stabilisation techniques to simultaneously overcome the added-mass effect and optimise the efficiency of the overall model. The PC-MRA data, fluid model, and FSI model results show almost identical flow features in the fistula; this applies in particular to a flow recirculation region in the vein that could potentially lead to fistula failure.
We address the problem of supporting radiologists in the longitudinal management of lung cancer. Therefore, we proposed a deep learning pipeline, composed of four stages that completely automatized from the detection of nodules to the classification of cancer, through the detection of growth in the nodules. In addition, the pipeline integrated a novel approach for nodule growth detection, which relied on a recent hierarchical probabilistic U-Net adapted to report uncertainty estimates. Also, a second novel method was introduced for lung cancer nodule classification, integrating into a two stream 3D-CNN network the estimated nodule malignancy probabilities derived from a pretrained nodule malignancy network. The pipeline was evaluated in a longitudinal cohort and reported comparable performances to the state of art.
Making accurate recommendations for cold-start users has been a longstanding and critical challenge for recommender systems (RS). Cross-domain recommendations (CDR) offer a solution to tackle such a cold-start problem when there is no sufficient data for the users who have rarely used the system. An effective approach in CDR is to leverage the knowledge (e.g., user representations) learned from a related but different domain and transfer it to the target domain. Fine-tuning works as an effective transfer learning technique for this objective, which adapts the parameters of a pre-trained model from the source domain to the target domain. However, current methods are mainly based on the global fine-tuning strategy: the decision of which layers of the pre-trained model to freeze or fine-tune is taken for all users in the target domain. In this paper, we argue that users in RS are personalized and should have their own fine-tuning policies for better preference transfer learning. As such, we propose a novel User-specific Adaptive Fine-tuning method (UAF), selecting which layers of the pre-trained network to fine-tune, on a per-user basis. Specifically, we devise a policy network with three alternative strategies to automatically decide which layers to be fine-tuned and which layers to have their parameters frozen for each user. Extensive experiments show that the proposed UAF exhibits significantly better and more robust performance for user cold-start recommendation.
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