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Confidence Calibration for Deep Renal Biopsy Immunofluorescence Image Classification

Federico Pollastri, Juan Maroñas, Federico Bolelli, Giulia Ligabue, Roberto Paredes, Riccardo Magistroni, Costantino Grana

Auto-TLDR; A Probabilistic Convolutional Neural Network for Immunofluorescence Classification in Renal Biopsy

Abstract Slides Poster

With this work we tackle immunofluorescence classification in renal biopsy, employing state-of-the-art Convolutional Neural Networks. In this setting, the aim of the probabilistic model is to assist an expert practitioner towards identifying the location pattern of antibody deposits within a glomerulus. Since modern neural networks often provide overconfident outputs, we stress the importance of having a reliable prediction, demonstrating that Temperature Scaling, a recently introduced re-calibration technique, can be successfully applied to immunofluorescence classification in renal biopsy. Experimental results demonstrate that the designed model yields good accuracy on the specific task, and that Temperature Scaling is able to provide reliable probabilities, which are highly valuable for such a task given the low inter-rater agreement.

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Supporting Skin Lesion Diagnosis with Content-Based Image Retrieval

Stefano Allegretti, Federico Bolelli, Federico Pollastri, Sabrina Longhitano, Giovanni Pellacani, Costantino Grana

Auto-TLDR; Skin Images Retrieval Using Convolutional Neural Networks for Skin Lesion Classification and Segmentation

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Given the relevance of skin cancer, many attempts have been dedicated to the creation of automated devices that could assist both expert and beginner dermatologists towards fast and early diagnosis of skin lesions. In recent years, tasks such as skin lesion classification and segmentation have been extensively addressed with deep learning algorithms, which in some cases reach a diagnostic accuracy comparable to that of expert physicians. However, the general lack of interpretability and reliability severely hinders the ability of those approaches to actually support dermatologists in the diagnosis process. In this paper a novel skin images retrieval system is presented, which exploits features extracted by Convolutional Neural Networks to gather similar images from a publicly available dataset, in order to assist the diagnosis process of both expert and novice practitioners. In the proposed framework, Resnet-50 is initially trained for the classification of dermoscopic images; then, the feature extraction part is isolated, and an embedding network is build on top of it. The embedding learns an alternative representation, which allows to check image similarity by means of a distance measure. Experimental results reveal that the proposed method is able to select meaningful images, which can effectively boost the classification accuracy of human dermatologists.

A Systematic Investigation on Deep Architectures for Automatic Skin Lesions Classification

Pierluigi Carcagni, Marco Leo, Andrea Cuna, Giuseppe Celeste, Cosimo Distante

Auto-TLDR; RegNet: Deep Investigation of Convolutional Neural Networks for Automatic Classification of Skin Lesions

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Computer vision-based techniques are more and more employed in healthcare and medical fields nowadays in order, principally, to be as a support to the experienced medical staff to help them to make a quick and correct diagnosis. One of the hot topics in this arena concerns the automatic classification of skin lesions. Several promising works exist about it, mainly leveraging Convolutional Neural Networks (CNN), but proposed pipeline mainly rely on complex data preprocessing and there is no systematic investigation about how available deep models can actually reach the accuracy needed for real applications. In order to overcome these drawbacks, in this work, an end-to-end pipeline is introduced and some of the most recent Convolutional Neural Networks (CNNs) architectures are included in it and compared on the largest common benchmark dataset recently introduced. To this aim, for the first time in this application context, a new network design paradigm, namely RegNet, has been exploited to get the best models among a population of configurations. The paper introduces a threefold level of contribution and novelty with respect the previous literature: the deep investigation of several CNN architectures driving to a consistent improvement of the lesions recognition accuracy, the exploitation of a new network design paradigm able to study the behavior of populations of models and a deep discussion about pro and cons of each analyzed method paving the path towards new research lines.

Uncertainty-Sensitive Activity Recognition: A Reliability Benchmark and the CARING Models

Alina Roitberg, Monica Haurilet, Manuel Martinez, Rainer Stiefelhagen

Auto-TLDR; CARING: Calibrated Action Recognition with Input Guidance

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Beyond assigning the correct class, an activity recognition model should also to be able to determine, how certain it is in its predictions. We present the first study of how well the confidence values of modern action recognition architectures indeed reflect the probability of the correct outcome and propose a learning-based approach for improving it. First, we extend two popular action recognition datasets with a reliability benchmark in form of the expected calibration error and reliability diagrams. Since our evaluation highlights that confidence values of standard action recognition architectures do not represent the uncertainty well, we introduce a new approach which learns to transform the model output into realistic confidence estimates through an additional calibration network. The main idea of our Calibrated Action Recognition with Input Guidance (CARING) model is to learn an optimal scaling parameter depending on the video representation. We compare our model with the native action recognition networks and the temperature scaling approach - a wide spread calibration method utilized in image classification. While temperature scaling alone drastically improves the reliability of the confidence values, our CARING method consistently leads to the best uncertainty estimates in all benchmark settings.

On-Manifold Adversarial Data Augmentation Improves Uncertainty Calibration

Kanil Patel, William Beluch, Dan Zhang, Michael Pfeiffer, Bin Yang

Auto-TLDR; On-Manifold Adversarial Data Augmentation for Uncertainty Estimation

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Uncertainty estimates help to identify ambiguous, novel, or anomalous inputs, but the reliable quantification of uncertainty has proven to be challenging for modern deep networks. To improve uncertainty estimation, we propose On-Manifold Adversarial Data Augmentation or OMADA, which specifically attempts to generate challenging examples by following an on-manifold adversarial attack path in the latent space of an autoencoder that closely approximates the decision boundaries between classes. On a variety of datasets and for multiple network architectures, OMADA consistently yields more accurate and better calibrated classifiers than baseline models, and outperforms competing approaches such as Mixup, as well as achieving similar performance to (at times better than) post-processing calibration methods such as temperature scaling. Variants of OMADA can employ different sampling schemes for ambiguous on-manifold examples based on the entropy of their estimated soft labels, which exhibit specific strengths for generalization, calibration of predicted uncertainty, or detection of out-of-distribution inputs.

A Systematic Investigation on End-To-End Deep Recognition of Grocery Products in the Wild

Marco Leo, Pierluigi Carcagni, Cosimo Distante

Auto-TLDR; Automatic Recognition of Products on grocery shelf images using Convolutional Neural Networks

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Automatic recognition of products on grocery shelf images is a new and attractive topic in computer vision and machine learning since, it can be exploited in different application areas. This paper introduces a complete end-to-end pipeline (without preliminary radiometric and spatial transformations usually involved while dealing with the considered issue) and it provides a systematic investigation of recent machine learning models based on convolutional neural networks for addressing the product recognition task by exploiting the proposed pipeline on a recent challenging grocery product dataset. The investigated models were never been used in this context: they derive from the successful and more generic object recognition task and have been properly tuned to address this specific issue. Besides, also ensembles of nets built by most advanced theoretical fundaments have been taken into account. Gathered classification results were very encouraging since the recognition accuracy has been improved up to 15\% with respect to the leading approaches in the state of art on the same dataset. A discussion about the pros and cons of the investigated solutions are discussed by paving the path towards new research lines.

Investigating and Exploiting Image Resolution for Transfer Learning-Based Skin Lesion Classification

Amirreza Mahbod, Gerald Schaefer, Chunliang Wang, Rupert Ecker, Georg Dorffner, Isabella Ellinger

Auto-TLDR; Fine-tuned Neural Networks for Skin Lesion Classification Using Dermoscopic Images

Abstract Slides Poster Similar

Skin cancer is among the most common cancer types. Dermoscopic image analysis improves the diagnostic accuracy for detection of malignant melanoma and other pigmented skin lesions when compared to unaided visual inspection. Hence, computer-based methods to support medical experts in the diagnostic procedure are of great interest. Fine-tuning pre-trained convolutional neural networks (CNNs) has been shown to work well for skin lesion classification. Pre-trained CNNs are usually trained with natural images of a fixed image size which is typically significantly smaller than captured skin lesion images and consequently dermoscopic images are downsampled for fine-tuning. However, useful medical information may be lost during this transformation. In this paper, we explore the effect of input image size on skin lesion classification performance of fine-tuned CNNs. For this, we resize dermoscopic images to different resolutions, ranging from 64x64 to 768x768 pixels and investigate the resulting classification performance of three well-established CNNs, namely DenseNet-121, ResNet-18, and ResNet-50. Our results show that using very small images (of size 64x64 pixels) degrades the classification performance, while images of size 128x128 pixels and above support good performance with larger image sizes leading to slightly improved classification. We further propose a novel fusion approach based on a three-level ensemble strategy that exploits multiple fine-tuned networks trained with dermoscopic images at various sizes. When applied on the ISIC 2017 skin lesion classification challenge, our fusion approach yields an area under the receiver operating characteristic curve of 89.2% and 96.6% for melanoma classification and seborrheic keratosis classification, respectively, outperforming state-of-the-art algorithms.

A Comparison of Neural Network Approaches for Melanoma Classification

Maria Frasca, Michele Nappi, Michele Risi, Genoveffa Tortora, Alessia Auriemma Citarella

Auto-TLDR; Classification of Melanoma Using Deep Neural Network Methodologies

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Melanoma is the deadliest form of skin cancer and it is diagnosed mainly visually, starting from initial clinical screening and followed by dermoscopic analysis, biopsy and histopathological examination. A dermatologist’s recognition of melanoma may be subject to errors and may take some time to diagnose it. In this regard, deep learning can be useful in the study and classification of skin cancer. In particular, by classifying images with Deep Neural Network methodologies, it is possible to obtain comparable or even superior results compared to those of dermatologists. In this paper, we propose a methodology for the classification of melanoma by adopting different deep learning techniques applied to a common dataset, composed of images from the ISIC dataset and consisting of different types of skin diseases, including melanoma on which we applied a specific pre-processing phase. In particular, a comparison of the results is performed in order to select the best effective neural network to be applied to the problem of recognition and classification of melanoma. Moreover, we also evaluate the impact of the pre- processing phase on the final classification. Different metrics such as accuracy, sensitivity, and specificity have been selected to assess the goodness of the adopted neural networks and compare them also with the manual classification of dermatologists.

Improving Model Accuracy for Imbalanced Image Classification Tasks by Adding a Final Batch Normalization Layer: An Empirical Study

Veysel Kocaman, Ofer M. Shir, Thomas Baeck

Auto-TLDR; Exploiting Batch Normalization before the Output Layer in Deep Learning for Minority Class Detection in Imbalanced Data Sets

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Some real-world domains, such as Agriculture and Healthcare, comprise early-stage disease indications whose recording constitutes a rare event, and yet, whose precise detection at that stage is critical. In this type of highly imbalanced classification problems, which encompass complex features, deep learning (DL) is much needed because of its strong detection capabilities. At the same time, DL is observed in practice to favor majority over minority classes and consequently suffer from inaccurate detection of the targeted early-stage indications. To simulate such scenarios, we artificially generate skewness (99% vs. 1%) for certain plant types out of the PlantVillage dataset as a basis for classification of scarce visual cues through transfer learning. By randomly and unevenly picking healthy and unhealthy samples from certain plant types to form a training set, we consider a base experiment as fine-tuning ResNet34 and VGG19 architectures and then testing the model performance on a balanced dataset of healthy and unhealthy images. We empirically observe that the initial F1 test score jumps from 0.29 to 0.95 for the minority class upon adding a final Batch Normalization (BN) layer just before the output layer in VGG19. We demonstrate that utilizing an additional BN layer before the output layer in modern CNN architectures has a considerable impact in terms of minimizing the training time and testing error for minority classes in highly imbalanced data sets. Moreover, when the final BN is employed, trying to minimize validation and training losses may not be an optimal way for getting a high F1 test score for minority classes in anomaly detection problems. That is, the network might perform better even if it is not ‘confident’ enough while making a prediction; leading to another discussion about why softmax output is not a good uncertainty measure for DL models.

Bridging the Gap between Natural and Medical Images through Deep Colorization

Lia Morra, Luca Piano, Fabrizio Lamberti, Tatiana Tommasi

Auto-TLDR; Transfer Learning for Diagnosis on X-ray Images Using Color Adaptation

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Deep learning has thrived by training on large-scale datasets. However, in many applications, as for medical image diagnosis, getting massive amount of data is still prohibitive due to privacy, lack of acquisition homogeneity and annotation cost. In this scenario transfer learning from natural image collections is a standard practice that attempts to tackle shape, texture and color discrepancy all at once through pretrained model fine-tuning. In this work we propose to disentangle those challenges and design a dedicated network module that focuses on color adaptation. We combine learning from scratch of the color module with transfer learning of different classification backbones obtaining an end-to-end, easy-to-train architecture for diagnostic image recognition on X-ray images. Extensive experiments show how our approach is particularly efficient in case of data scarcity and provides a new path for further transferring the learned color information across multiple medical datasets.

Planar 3D Transfer Learning for End to End Unimodal MRI Unbalanced Data Segmentation

Martin Kolarik, Radim Burget, Carlos M. Travieso-Gonzalez, Jan Kocica

Auto-TLDR; Planar 3D Res-U-Net Network for Unbalanced 3D Image Segmentation using Fluid Attenuation Inversion Recover

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We present a novel approach of 2D to 3D transfer learning based on mapping pre-trained 2D convolutional neural network weights into planar 3D kernels. The method is validated by proposed planar 3D res-u-net network with encoder transferred from the 2D VGG-16 which is applied for a single-stage unbalanced 3D image data segmentation. In particular, we evaluate the method on the MICCAI 2016 MS lesion segmentation challenge dataset utilizing solely Fluid Attenuation Inversion Recover (FLAIR) sequence without brain extraction for training and inference to simulate real medical praxis. The planar 3D res-u-net network performed the best both in sensitivity and Dice score amongst end to end methods processing raw MRI scans and achieved comparable Dice score to a state-of-the-art unimodal not end to end approach. Complete source code was released under the open-source license and this paper is in compliance with the Machine learning Reproducibility Checklist. By implementing practical transfer learning for 3D data representation we were able to successfully segment heavily unbalanced data without selective sampling and achieved more reliable results using less training data in single modality. From medical perspective, the unimodal approach gives an advantage in real praxis as it does not require co-registration nor additional scanning time during examination. Although modern medical imaging methods capture high resolution 3D anatomy scans suitable for computer aided detection system processing, deployment of automatic systems for interpretation of radiology imaging is still rather theoretical in many medical areas. Our work aims to bridge the gap offering solution for partial research questions.

Quasibinary Classifier for Images with Zero and Multiple Labels

Liao Shuai, Efstratios Gavves, Changyong Oh, Cees Snoek

Auto-TLDR; Quasibinary Classifiers for Zero-label and Multi-label Classification

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The softmax and binary classifier are commonly preferred for image classification applications. However, as softmax is specifically designed for categorical classification, it assumes each image has just one class label. This limits its applicability for problems where the number of labels does not equal one, most notably zero- and multi-label problems. In these challenging settings, binary classifiers are, in theory, better suited. However, as they ignore the correlation between classes, they are not as accurate and scalable in practice. In this paper, we start from the observation that the only difference between binary and softmax classifiers is their normalization function. Specifically, while the binary classifier self-normalizes its score, the softmax classifier combines the scores from all classes before normalization. On the basis of this observation we introduce a normalization function that is learnable, constant, and shared between classes and data points. By doing so, we arrive at a new type of binary classifier that we coin quasibinary classifier. We show in a variety of image classification settings, and on several datasets, that quasibinary classifiers are considerably better in classification settings where regular binary and softmax classifiers suffer, including zero-label and multi-label classification. What is more, we show that quasibinary classifiers yield well-calibrated probabilities allowing for direct and reliable comparisons, not only between classes but also between data points.

Fine-Tuning Convolutional Neural Networks: A Comprehensive Guide and Benchmark Analysis for Glaucoma Screening

Amed Mvoulana, Rostom Kachouri, Mohamed Akil

Auto-TLDR; Fine-tuning Convolutional Neural Networks for Glaucoma Screening

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This work aimed at giving a comprehensive and in-detailed guide on the route to fine-tuning Convolutional Neural Networks (CNNs) for glaucoma screening. Transfer learning consists in a promising alternative to train CNNs from stratch, to avoid the huge data and resources requirements. After a thorough study of five state-of-the-art CNNs architectures, a complete and well-explained strategy for fine-tuning these networks is proposed, using hyperparameter grid-searching and two-phase training approach. Excellent performance is reached on model evaluation, with a 0.9772 AUROC validation rate, giving arise to reliable glaucoma diagosis-help systems. Also, a benchmark analysis is conducted across all fine-tuned models, studying them according to performance indices such as model complexity and size, AUROC density and inference time. This in-depth analysis allows a rigorous comparison between model characteristics, and is useful for giving practioners important trademarks for prospective applications and deployments.

Multi-Attribute Learning with Highly Imbalanced Data

Lady Viviana Beltran Beltran, Mickaël Coustaty, Nicholas Journet, Juan C. Caicedo, Antoine Doucet

Auto-TLDR; Data Imbalance in Multi-Attribute Deep Learning Models: Adaptation to face each one of the problems derived from imbalance

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Data is one of the most important keys for success when studying a simple or a complex phenomenon. With the use of deep-learning exploding and its democratization, non-computer science experts may struggle to use highly complex deep learning architectures, even when straightforward models offer them suitable performances. In this article, we study the specific and common problem of data imbalance in real databases as most of the bad performance problems are due to the data itself. We review two points: first, when the data contains different levels of imbalance. Classical imbalanced learning strategies cannot be directly applied when using multi-attribute deep learning models, i.e., multi-task and multi-label architectures. Therefore, one of our contributions is our proposed adaptations to face each one of the problems derived from imbalance. Second, we demonstrate that with little to no imbalance, straightforward deep learning models work well. However, for non-experts, these models can be seen as black boxes, where all the effort is put in pre-processing the data. To simplify the problem, we performed the classification task ignoring information that is costly to extract, such as part localization which is widely used in the state of the art of attribute classification. We make use of a widely known attribute database, CUB-200-2011 - CUB as our main use case due to its deeply imbalanced nature, along with two better structured databases: celebA and Awa2. All of them contain multi-attribute annotations. The results of highly fine-grained attribute learning over CUB demonstrate that in the presence of imbalance, by using our proposed strategies is possible to have competitive results against the state of the art, while taking advantage of multi-attribute deep learning models. We also report results for two better-structured databases over which our models over-perform the state of the art.

Learn to Segment Retinal Lesions and Beyond

Qijie Wei, Xirong Li, Weihong Yu, Xiao Zhang, Yongpeng Zhang, Bojie Hu, Bin Mo, Di Gong, Ning Chen, Dayong Ding, Youxin Chen

Auto-TLDR; Multi-task Lesion Segmentation and Disease Classification for Diabetic Retinopathy Grading

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Towards automated retinal screening, this paper makes an endeavor to simultaneously achieve pixel-level retinal lesion segmentation and image-level disease classification. Such a multi-task approach is crucial for accurate and clinically interpretable disease diagnosis. Prior art is insufficient due to three challenges, i.e., lesions lacking objective boundaries, clinical importance of lesions irrelevant to their size, and the lack of one-to-one correspondence between lesion and disease classes. This paper attacks the three challenges in the context of diabetic retinopathy (DR) grading. We propose Lesion-Net, a new variant of fully convolutional networks, with its expansive path re- designed to tackle the first challenge. A dual Dice loss that leverages both semantic segmentation and image classification losses is introduced to resolve the second challenge. Lastly, we build a multi-task network that employs Lesion-Net as a side- attention branch for both DR grading and result interpretation. A set of 12K fundus images is manually segmented by 45 ophthalmologists for 8 DR-related lesions, resulting in 290K manual segments in total. Extensive experiments on this large- scale dataset show that our proposed approach surpasses the prior art for multiple tasks including lesion segmentation, lesion classification and DR grading.

Deep Learning in the Ultrasound Evaluation of Neonatal Respiratory Status

Michela Gravina, Diego Gragnaniello, Giovanni Poggi, Luisa Verdoliva, Carlo Sansone, Iuri Corsini, Carlo Dani, Fabio Meneghin, Gianluca Lista, Salvatore Aversa, Migliaro Migliaro, Raimondi Francesco

Auto-TLDR; Lung Ultrasound Imaging with Deep Learning Networks and Training Strategies: An Analysis and Adaptation

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Lung ultrasound imaging is reaching growing interest from the scientific community. On one side, thanks to its harmlessness and high descriptive power, this kind of diagnostic imaging became largely adopted in sensitive applications, like the diagnosis and follow-up of preterm newborns in neonatal intensive care units. At the same time, novel image analysis and pattern recognition approaches can fully exploit the rich information contained in this data, making them attractive for the research community. In this work, we present a thorough analysis of recent deep learning networks and training strategies conducted on a vast and challenging multicenter dataset comprising 87 patients with different diseases and gestational ages. These approaches are firstly discussed in the context of lung respiratory status assessing through ultrasound imaging and then evaluated against a reference marker. The conducted analysis shed some light on this problem, by relating the criticisms that can mislead the training procedure and proposing some adaptations to the specific problem. The achieved results sensibly outperform that obtained by previous work, based on textural features, and narrow the gap with the visual score predicted by the human experts.

Automatic Semantic Segmentation of Structural Elements related to the Spinal Cord in the Lumbar Region by Using Convolutional Neural Networks

Jhon Jairo Sáenz Gamboa, Maria De La Iglesia-Vaya, Jon Ander Gómez

Auto-TLDR; Semantic Segmentation of Lumbar Spine Using Convolutional Neural Networks

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This work addresses the problem of automatically segmenting the MR images corresponding to the lumbar spine. The purpose is to detect and delimit the different structural elements like vertebrae, intervertebral discs, nerves, blood vessels, etc. This task is known as semantic segmentation. The approach proposed in this work is based on convolutional neural networks whose output is a mask where each pixel from the input image is classified into one of the possible classes. Classes were defined by radiologists and correspond to structural elements and tissues. The proposed network architectures are variants of the U-Net. Several complementary blocks were used to define the variants: spatial attention models, deep supervision and multi-kernels at input, this last block type is based on the idea of inception. Those architectures which got the best results are described in this paper, and their results are discussed. Two of the proposed architectures outperform the standard U-Net used as baseline.

Modeling the Distribution of Normal Data in Pre-Trained Deep Features for Anomaly Detection

Oliver Rippel, Patrick Mertens, Dorit Merhof

Auto-TLDR; Deep Feature Representations for Anomaly Detection in Images

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Anomaly Detection (AD) in images is a fundamental computer vision problem and refers to identifying images and/or image substructures that deviate significantly from the norm. Popular AD algorithms commonly try to learn a model of normality from scratch using task specific datasets, but are limited to semi-supervised approaches employing mostly normal data due to the inaccessibility of anomalies on a large scale combined with the ambiguous nature of anomaly appearance. We follow an alternative approach and demonstrate that deep feature representations learned by discriminative models on large natural image datasets are well suited to describe normality and detect even subtle anomalies. Our model of normality is established by fitting a multivariate Gaussian to deep feature representations of classification networks trained on ImageNet using normal data only in a transfer learning setting. By subsequently applying the Mahalanobis distance as the anomaly score we outperform the current state of the art on the public MVTec AD dataset, achieving an Area Under the Receiver Operating Characteristic curve of 95.8 +- 1.2 % (mean +- SEM) over all 15 classes. We further investigate why the learned representations are discriminative to the AD task using Principal Component Analysis. We find that the principal components containing little variance in normal data are the ones crucial for discriminating between normal and anomalous instances. This gives a possible explanation to the often sub-par performance of AD approaches trained from scratch using normal data only. By selectively fitting a multivariate Gaussian to these most relevant components only, we are able to further reduce model complexity while retaining AD performance. We also investigate setting the working point by selecting acceptable False Positive Rate thresholds based on the multivariate Gaussian assumption.

Trainable Spectrally Initializable Matrix Transformations in Convolutional Neural Networks

Michele Alberti, Angela Botros, Schuetz Narayan, Rolf Ingold, Marcus Liwicki, Mathias Seuret

Auto-TLDR; Trainable and Spectrally Initializable Matrix Transformations for Neural Networks

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In this work, we introduce a new architectural component to Neural Networks (NN), i.e., trainable and spectrally initializable matrix transformations on feature maps. While previous literature has already demonstrated the possibility of adding static spectral transformations as feature processors, our focus is on more general trainable transforms. We study the transforms in various architectural configurations on four datasets of different nature: from medical (ColorectalHist, HAM10000) and natural (Flowers) images to historical documents (CB55). With rigorous experiments that control for the number of parameters and randomness, we show that networks utilizing the introduced matrix transformations outperform vanilla neural networks. The observed accuracy increases appreciably across all datasets. In addition, we show that the benefit of spectral initialization leads to significantly faster convergence, as opposed to randomly initialized matrix transformations. The transformations are implemented as auto-differentiable PyTorch modules that can be incorporated into any neural network architecture. The entire code base is open-source.

Towards Robust Learning with Different Label Noise Distributions

Diego Ortego, Eric Arazo, Paul Albert, Noel E O'Connor, Kevin Mcguinness

Auto-TLDR; Distribution Robust Pseudo-Labeling with Semi-supervised Learning

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Noisy labels are an unavoidable consequence of labeling processes and detecting them is an important step towards preventing performance degradations in Convolutional Neural Networks. Discarding noisy labels avoids a harmful memorization, while the associated image content can still be exploited in a semi-supervised learning (SSL) setup. Clean samples are usually identified using the small loss trick, i.e. they exhibit a low loss. However, we show that different noise distributions make the application of this trick less straightforward and propose to continuously relabel all images to reveal a discriminative loss against multiple distributions. SSL is then applied twice, once to improve the clean-noisy detection and again for training the final model. We design an experimental setup based on ImageNet32/64 for better understanding the consequences of representation learning with differing label noise distributions and find that non-uniform out-of-distribution noise better resembles real-world noise and that in most cases intermediate features are not affected by label noise corruption. Experiments in CIFAR-10/100, ImageNet32/64 and WebVision (real-world noise) demonstrate that the proposed label noise Distribution Robust Pseudo-Labeling (DRPL) approach gives substantial improvements over recent state-of-the-art. Code will be made available.

Attack-Agnostic Adversarial Detection on Medical Data Using Explainable Machine Learning

Matthew Watson, Noura Al Moubayed

Auto-TLDR; Explainability-based Detection of Adversarial Samples on EHR and Chest X-Ray Data

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Explainable machine learning has become increasingly prevalent, especially in healthcare where explainable models are vital for ethical and trusted automated decision making. Work on the susceptibility of deep learning models to adversarial attacks has shown the ease of designing samples to mislead a model into making incorrect predictions. In this work, we propose an explainability-based method for the accurate detection of adversarial samples on two datasets with different complexity and properties: Electronic Health Record (EHR) and chest X-ray (CXR) data. On the MIMIC-III and Henan-Renmin EHR datasets, we report a detection accuracy of 77% against the Longitudinal Adversarial Attack. On the MIMIC-CXR dataset, we achieve an accuracy of 88%; significantly improving on the state of the art of adversarial detection in both datasets by over 10% in all settings. We propose an anomaly detection based method using explainability techniques to detect adversarial samples which is able to generalise to different attack methods without a need for retraining.

Separation of Aleatoric and Epistemic Uncertainty in Deterministic Deep Neural Networks

Denis Huseljic, Bernhard Sick, Marek Herde, Daniel Kottke

Auto-TLDR; AE-DNN: Modeling Uncertainty in Deep Neural Networks

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Despite the success of deep neural networks (DNN) in many applications, their ability to model uncertainty is still significantly limited. For example, in safety-critical applications such as autonomous driving, it is crucial to obtain a prediction that reflects different types of uncertainty to address life-threatening situations appropriately. In such cases, it is essential to be aware of the risk (i.e., aleatoric uncertainty) and the reliability (i.e., epistemic uncertainty) that comes with a prediction. We present AE-DNN, a model allowing the separation of aleatoric and epistemic uncertainty while maintaining a proper generalization capability. AE-DNN is based on deterministic DNN, which can determine the respective uncertainty measures in a single forward pass. In analyses with synthetic and image data, we show that our method improves the modeling of epistemic uncertainty while providing an intuitively understandable separation of risk and reliability.

Dealing with Scarce Labelled Data: Semi-Supervised Deep Learning with Mix Match for Covid-19 Detection Using Chest X-Ray Images

Saúl Calderón Ramirez, Raghvendra Giri, Shengxiang Yang, Armaghan Moemeni, Mario Umaña, David Elizondo, Jordina Torrents-Barrena, Miguel A. Molina-Cabello

Auto-TLDR; Semi-supervised Deep Learning for Covid-19 Detection using Chest X-rays

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Coronavirus (Covid-19) is spreading fast, infecting people through contact in various forms including droplets from sneezing and coughing. Therefore, the detection of infected subjects in an early, quick and cheap manner is urgent. Currently available tests are scarce and limited to people in danger of serious illness. The application of deep learning to chest X-ray images for Covid-19 detection is an attractive approach. However, this technology usually relies on the availability of large labelled datasets, a requirement hard to meet in the context of a virus outbreak. To overcome this challenge, a semi-supervised deep learning model using both labelled and unlabelled data is proposed. We developed and tested a semi-supervised deep learning framework based on the Mix Match architecture to classify chest X-rays into Covid-19, pneumonia and healthy cases. The presented approach was calibrated using two publicly available datasets. The results show an accuracy increase of around $15\%$ under low labelled / unlabelled data ratio. This indicates that our semi-supervised framework can help improve performance levels towards Covid-19 detection when the amount of high-quality labelled data is scarce. Also, we introduce a semi-supervised deep learning boost coefficient which is meant to ease the scalability of our approach and performance comparison.

Generalization Comparison of Deep Neural Networks Via Output Sensitivity

Mahsa Forouzesh, Farnood Salehi, Patrick Thiran

Auto-TLDR; Generalization of Deep Neural Networks using Sensitivity

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Although recent works have brought some insights into the performance improvement of techniques used in state-of-the-art deep-learning models, more work is needed to understand their generalization properties. We shed light on this matter by linking the loss function to the output's sensitivity to its input. We find a rather strong empirical relation between the output sensitivity and the variance in the bias-variance decomposition of the loss function, which hints on using sensitivity as a metric for comparing the generalization performance of networks, without requiring labeled data. We find that sensitivity is decreased by applying popular methods which improve the generalization performance of the model, such as (1) using a deep network rather than a wide one, (2) adding convolutional layers to baseline classifiers instead of adding fully-connected layers, (3) using batch normalization, dropout and max-pooling, and (4) applying parameter initialization techniques.

Dual Stream Network with Selective Optimization for Skin Disease Recognition in Consumer Grade Images

Krishnam Gupta, Jaiprasad Rampure, Monu Krishnan, Ajit Narayanan, Nikhil Narayan

Auto-TLDR; A Deep Network Architecture for Skin Disease Localisation and Classification on Consumer Grade Images

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Skin disease localisation and classification on consumer-grade images is more challenging compared to that on dermoscopic imaging. Consumer grade images refer to the images taken using commonly available imaging devices such as a mobile camera or a hand held digital camera. Such images, in addition to having the skin condition of interest in a very small area of the image, has other noisy non-clinical details introduced due to the lighting conditions and the distance of the hand held device from the anatomy at the time of acquisition. We propose a novel deep network architecture \& a new optimization strategy for classification with implicit localisation of skin diseases from clinical/consumer grade images. A weakly supervised segmentation algorithm is first employed to extract Region of Interests (RoI) from the image, the RoI and the original image form the two input streams of the proposed architecture. Each stream of the architecture learns high level and low level features from the original image and the RoI, respectively. The two streams are independently optimised until the loss stops decreasing after which both the streams are optimised collectively with the help of a third combiner sub-network. Such a strategy resulted in a 5% increase of accuracy over the current state-of-the-art methods on SD-198 dataset, which is publicly available. The proposed algorithm is also validated on a new dataset containing over 12,000 images across 75 different skin conditions. We intend to release this dataset as SD-75 to aid in the advancement of research on skin condition classification on consumer grade images.

Probability Guided Maxout

Claudio Ferrari, Stefano Berretti, Alberto Del Bimbo

Auto-TLDR; Probability Guided Maxout for CNN Training

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In this paper, we propose an original CNN training strategy that brings together ideas from both dropout-like regularization methods and solutions that learn discriminative features. We propose a dropping criterion that, differently from dropout and its variants, is deterministic rather than random. It grounds on the empirical evidence that feature descriptors with larger $L2$-norm and highly-active nodes are strongly correlated to confident class predictions. Thus, our criterion guides towards dropping a percentage of the most active nodes of the descriptors, proportionally to the estimated class probability. We simultaneously train a per-sample scaling factor to balance the expected output across training and inference. This further allows us to keep high the descriptor's L2-norm, which we show enforces confident predictions. The combination of these two strategies resulted in our ``Probability Guided Maxout'' solution that acts as a training regularizer. We prove the above behaviors by reporting extensive image classification results on the CIFAR10, CIFAR100, and Caltech256 datasets.

The Color Out of Space: Learning Self-Supervised Representations for Earth Observation Imagery

Stefano Vincenzi, Angelo Porrello, Pietro Buzzega, Marco Cipriano, Pietro Fronte, Roberto Cuccu, Carla Ippoliti, Annamaria Conte, Simone Calderara

Auto-TLDR; Satellite Image Representation Learning for Remote Sensing

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The recent growth in the number of satellite images fosters the development of effective deep-learning techniques for Remote Sensing (RS). However, their full potential is untapped due to the lack of large annotated datasets. Such a problem is usually countered by fine-tuning a feature extractor that is previously trained on the ImageNet dataset. Unfortunately, the domain of natural images differs from the RS one, which hinders the final performance. In this work, we propose to learn meaningful representations from satellite imagery, leveraging its high-dimensionality spectral bands to reconstruct the visible colors. We conduct experiments on land cover classification (BigEarthNet) and West Nile Virus detection, showing that colorization is a solid pretext task for training a feature extractor. Furthermore, we qualitatively observe that guesses based on natural images and colorization rely on different parts of the input. This paves the way to an ensemble model that eventually outperforms both the above-mentioned techniques.

Skin Lesion Classification Using Weakly-Supervised Fine-Grained Method

Xi Xue, Sei-Ichiro Kamata, Daming Luo

Auto-TLDR; Different Region proposal module for skin lesion classification

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In recent years, skin cancer has become one of the most common cancers. Among all types of skin cancers, melanoma is the most fatal one and many people die of this disease every year. Early detection can greatly reduce the death rate and save more lives. Skin lesions are one of the early symptoms of melanoma and other types of skin cancer. So accurately recognizing various skin lesions in early stage are of great significance. There have been lots of existing works based on convolutional neural networks (CNN) to solve skin lesion classification but seldom do them involve the similarity among different lesions. For example, we find that some lesions of melanoma and nevi look similar in appearance which is hard for neural network to distinguish categories of skin lesions. Inspired by fine-grained image classification, we propose a novel network to distinguish each category accurately. In our paper, we design an effective module, distinct region proposal module (DRPM), to extract the distinct regions from each image. Spatial attention and channel-wise attention are both utilized to enrich feature maps and guide the network to focus on the highlighted areas in a weakly-supervised way. In addition, two preprocessing steps are added to ensure the network to get better results. We demonstrate the potential of the proposed method on ISIC 2017 dataset. Experiments show that our approach is effective and efficient.

Deep Learning-Based Type Identification of Volumetric MRI Sequences

Jean Pablo De Mello, Thiago Paixão, Rodrigo Berriel, Mauricio Reyes, Alberto F. De Souza, Claudine Badue, Thiago Oliveira-Santos

Auto-TLDR; Deep Learning for Brain MRI Sequences Identification Using Convolutional Neural Network

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The analysis of Magnetic Resonance Imaging (MRI) sequences enables clinical professionals to monitor the progression of a brain tumor. As the interest for automatizing brain volume MRI analysis increases, it becomes convenient to have each sequence well identified. However, the unstandardized naming of MRI sequences make their identification difficult for automated systems, as well as make it difficult for researches to generate or use datasets for machine learning research. In face of that, we propose a system for identifying types of brain MRI sequences based on deep learning. By training a Convolutional Neural Network (CNN) based on 18-layer ResNet architecture, our system is able to classify a volumetric brain MRI as a T1, T1c, T2 or FLAIR sequence, or whether it does not belong to any of these classes. The network was trained with both pre-processed (BraTS dataset) and non-pre-processed (TCGA-GBM dataset) images with diverse acquisition protocols, requiring only a few layers of the volume for training. Our system is able to classify among sequence types with an accuracy of 96.27%.

A Close Look at Deep Learning with Small Data

Lorenzo Brigato, Luca Iocchi

Auto-TLDR; Low-Complex Neural Networks for Small Data Conditions

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In this work, we perform a wide variety of experiments with different Deep Learning architectures in small data conditions. We show that model complexity is a critical factor when only a few samples per class are available. Differently from the literature, we improve the state of the art using low complexity models. We show that standard convolutional neural networks with relatively few parameters are effective in this scenario. In many of our experiments, low complexity models outperform state-of-the-art architectures. Moreover, we propose a novel network that uses an unsupervised loss to regularize its training. Such architecture either improves the results either performs comparably well to low capacity networks. Surprisingly, experiments show that the dynamic data augmentation pipeline is not beneficial in this particular domain. Statically augmenting the dataset might be a promising research direction while dropout maintains its role as a good regularizer.

Can Data Placement Be Effective for Neural Networks Classification Tasks? Introducing the Orthogonal Loss

Brais Cancela, Veronica Bolon-Canedo, Amparo Alonso-Betanzos

Auto-TLDR; Spatial Placement for Neural Network Training Loss Functions

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Traditionally, a Neural Network classification training loss function follows the same principle: minimizing the distance between samples that belong to the same class, while maximizing the distance to the other classes. There are no restrictions on the spatial placement of deep features (last layer input). This paper addresses this issue when dealing with Neural Networks, providing a set of loss functions that are able to train a classifier by forcing the deep features to be projected over a predefined orthogonal basis. Experimental results shows that these `data placement' functions can overcome the training accuracy provided by the classic cross-entropy loss function.

Stochastic Label Refinery: Toward Better Target Label Distribution

Xi Fang, Jiancheng Yang, Bingbing Ni

Auto-TLDR; Stochastic Label Refinery for Deep Supervised Learning

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This paper proposes a simple yet effective strategy for improving deep supervised learning, named Stochastic Label Refinery (SLR), by refining training labels to more informative labels. When training a neural network, target distributions (or ground-truth) are typically "hard", which means the target label of each category consists of only 0 and 1. However, the fixed "hard" target distributions do not capture association between categories or that between objects. In this study, instead of using the hard target distributions, we iteratively generate "soft" target label distributions for training the neural networks, which leads to better performances. The soft target distributions are obtained via an Expectation-Maximization (EM) iteration, where the "true" target distributions and the learned models are regarded as hidden variables. In E step, the models are optimized to approximate the target distributions on stochastic splits of training data; In M step, the target distributions are updated with predicted pseudo-label on leave-out splits. Extensive experiments on classification and ordinal regression tasks, empirically prove that the refined target distribution consistently leads to considerable performance improvements even applied on competitive baselines. Notably, in DeepDR 2020 Diabetic Retinopathy Grading (DeepDRiD) challenge, our method improves the quadratic weighted kappa on official validation set from 0.8247 to 0.8348 and achieves a state-of-the-art score on online test set. The proposed SLR technique is easy to implement and practically applicable. The code will be open sourced soon.

Towards Tackling Multi-Label Imbalances in Remote Sensing Imagery

Dominik Koßmann, Thorsten Wilhelm, Gernot Fink

Auto-TLDR; Class imbalance in land cover datasets using attribute encoding schemes

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Recent advances in automated image analysis have lead to an increased number of proposed datasets in remote sensing applications. This permits the successful employment of data hungry state-of-the-art deep neural networks. However, the Earth is not covered equally by semantically meaningful classes. Thus, many land cover datasets suffer from a severe class imbalance. We show that by taking appropriate measures, the performance in the minority classes can be improved by up to 30 percent without affecting the performance in the majority classes strongly. Additionally, we investigate the use of an attribute encoding scheme to represent the inherent class hierarchies commonly observed in land cover analysis.

Deep Convolutional Embedding for Digitized Painting Clustering

Giovanna Castellano, Gennaro Vessio

Auto-TLDR; A Deep Convolutional Embedding Model for Clustering Artworks

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Clustering artworks is difficult because of several reasons. On one hand, recognizing meaningful patterns in accordance with domain knowledge and visual perception is extremely hard. On the other hand, the application of traditional clustering and feature reduction techniques to the highly dimensional pixel space can be ineffective. To address these issues, we propose to use a deep convolutional embedding model for digitized painting clustering, in which the task of mapping the input raw data to an abstract, latent space is jointly optimized with the task of finding a set of cluster centroids in this latent feature space. Quantitative and qualitative experimental results show the effectiveness of the proposed method. The model is also able to outperform other state-of-the-art deep clustering approaches to the same problem. The proposed method may be beneficial to several art-related tasks, particularly visual link retrieval and historical knowledge discovery in painting datasets.

Weight Estimation from an RGB-D Camera in Top-View Configuration

Marco Mameli, Marina Paolanti, Nicola Conci, Filippo Tessaro, Emanuele Frontoni, Primo Zingaretti

Auto-TLDR; Top-View Weight Estimation using Deep Neural Networks

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The development of so-called soft-biometrics aims at providing information related to the physical and behavioural characteristics of a person. This paper focuses on bodyweight estimation based on the observation from a top-view RGB-D camera. In fact, the capability to estimate the weight of a person can be of help in many different applications, from health-related scenarios to business intelligence and retail analytics. To deal with this issue, a TVWE (Top-View Weight Estimation) framework is proposed with the aim of predicting the weight. The approach relies on the adoption of Deep Neural Networks (DNNs) that have been trained on depth data. Each network has also been modified in its top section to replace classification with prediction inference. The performance of five state-of-art DNNs has been compared, namely VGG16, ResNet, Inception, DenseNet and Efficient-Net. In addition, a convolutional auto-encoder has also been included for completeness. Considering the limited literature in this domain, the TVWE framework has been evaluated on a new publicly available dataset: “VRAI Weight estimation Dataset”, which also collects, for each subject, labels related to weight, gender, and height. The experimental results have demonstrated that the proposed methods are suitable for this task, bringing different and significant insights for the application of the solution in different domains.

MaxDropout: Deep Neural Network Regularization Based on Maximum Output Values

Claudio Filipi Gonçalves Santos, Danilo Colombo, Mateus Roder, Joao Paulo Papa

Auto-TLDR; MaxDropout: A Regularizer for Deep Neural Networks

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Different techniques have emerged in the deep learning scenario, such as Convolutional Neural Networks, Deep Belief Networks, and Long Short-Term Memory Networks, to cite a few. In lockstep, regularization methods, which aim to prevent overfitting by penalizing the weight connections, or turning off some units, have been widely studied either. In this paper, we present a novel approach called MaxDropout, a regularizer for deep neural network models that works in a supervised fashion by removing (shutting off) the prominent neurons (i.e., most active) in each hidden layer. The model forces fewer activated units to learn more representative information, thus providing sparsity. Regarding the experiments, we show that it is possible to improve existing neural networks and provide better results in neural networks when Dropout is replaced by MaxDropout. The proposed method was evaluated in image classification, achieving comparable results to existing regularizers, such as Cutout and RandomErasing, also improving the accuracy of neural networks that uses Dropout by replacing the existing layer by MaxDropout.

Video Face Manipulation Detection through Ensemble of CNNs

Nicolo Bonettini, Edoardo Daniele Cannas, Sara Mandelli, Luca Bondi, Paolo Bestagini, Stefano Tubaro

Auto-TLDR; Face Manipulation Detection in Video Sequences Using Convolutional Neural Networks

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In the last few years, several techniques for facial manipulation in videos have been successfully developed and made available to the masses (i.e., FaceSwap, deepfake, etc.). These methods enable anyone to easily edit faces in video sequences with incredibly realistic results and a very little effort. Despite the usefulness of these tools in many fields, if used maliciously, they can have a significantly bad impact on society (e.g., fake news spreading, cyber bullying through fake revenge porn). The ability of objectively detecting whether a face has been manipulated in a video sequence is then a task of utmost importance. In this paper, we tackle the problem of face manipulation detection in video sequences targeting modern facial manipulation techniques. In particular, we study the ensembling of different trained Convolutional Neural Network (CNN) models. In the proposed solution, different models are obtained starting from a base network (i.e., EfficientNetB4) making use of two different concepts: (i) attention layers; (ii) siamese training. We show that combining these networks leads to promising face manipulation detection results on two publicly available datasets with more than 119000 videos.

A Delayed Elastic-Net Approach for Performing Adversarial Attacks

Brais Cancela, Veronica Bolon-Canedo, Amparo Alonso-Betanzos

Auto-TLDR; Robustness of ImageNet Pretrained Models against Adversarial Attacks

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With the rise of the so-called Adversarial Attacks, there is an increased concern on model security. In this paper we present two different contributions: novel measures of robustness (based on adversarial attacks) and a novel adversarial attack. The key idea behind these metrics is to obtain a measure that could compare different architectures, with independence of how the input is preprocessed (robustness against different input sizes and value ranges). To do so, a novel adversarial attack is presented, performing a delayed elastic-net adversarial attack (constraints are only used whenever a successful adversarial attack is obtained). Experimental results show that our approach obtains state-of-the-art adversarial samples, in terms of minimal perturbation distance. Finally, a benchmark of ImageNet pretrained models is used to conduct experiments aiming to shed some light about which model should be selected whenever security is a role factor.

Merged 1D-2D Deep Convolutional Neural Networks for Nerve Detection in Ultrasound Images

Mohammad Alkhatib, Adel Hafiane, Pierre Vieyres

Auto-TLDR; A Deep Neural Network for Deep Neural Networks to Detect Median Nerve in Ultrasound-Guided Regional Anesthesia

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Ultrasound-Guided Regional Anesthesia (UGRA) becomes a standard procedure in surgical operations and contributes to pain management. It offers the advantages of the targeted nerve detection and provides the visualization of regions of interest such as anatomical structures. However, nerve detection is one of the most challenging tasks that anesthetists can encounter in the UGRA procedure. A computer-aided system that can detect automatically the nerve region would facilitate the anesthetist's daily routine and allow them to concentrate more on the anesthetic delivery. In this paper, we propose a new method based on merging deep learning models from different data to detect the median nerve. The merged architecture consists of two branches, one being one dimensional (1D) convolutional neural networks (CNN) branch and another 2D CNN branch. The merged architecture aims to learn the high-level features from 1D handcrafted noise-robust features and 2D ultrasound images. The obtained results show the validity and high accuracy of the proposed approach and its robustness.

A Multi-Task Contextual Atrous Residual Network for Brain Tumor Detection & Segmentation

Ngan Le, Kashu Yamazaki, Quach Kha Gia, Thanh-Dat Truong, Marios Savvides

Auto-TLDR; Contextual Brain Tumor Segmentation Using 3D atrous Residual Networks and Cascaded Structures

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In recent years, deep neural networks have achieved state-of-the-art performance in a variety of recognition and segmentation tasks in medical imaging including brain tumor segmentation. We investigate that segmenting brain tumor is facing to the imbalanced data problem where the number of pixels belonging to background class (non tumor pixel) is much larger than the number of pixels belonging to foreground class (tumor pixel). To address this problem, we propose a multi-task network which is formed as a cascaded structure and designed to share the feature maps. Our model consists of two targets, i.e., (i) effectively differentiating brain tumor regions and (ii) estimating brain tumor masks. The first task is performed by our proposed contextual brain tumor detection network, which plays the role of an attention gate and focuses on the region around brain tumor only while ignore the background (non tumor area). Instead of processing every pixel, our contextual brain tumor detection network only processes contextual regions around ground-truth instances and this strategy helps to produce meaningful regions proposals. The second task is built upon a 3D atrous residual network and under an encode-decode network in order to effectively segment both large and small objects (brain tumor). Our 3D atrous residual network is designed with a skip connection to enables the gradient from the deep layers to be directly propagated to shallow layers, thus, features of different depths are preserved and used for refining each other. In order to incorporate larger contextual information in volume MRI data, our network is designed by 3D atrous convolution with various kernel sizes, which enlarges the receptive field of filters. Our proposed network has been evaluated on various datasets including BRATS2015, BRATS2017 and BRATS2018 datasets with both validation set and testing set. Our performance has been benchmarked by both region-based metrics and surface-based metrics. We also have conducted comparisons against state-of-the-art approaches.

Iterative Label Improvement: Robust Training by Confidence Based Filtering and Dataset Partitioning

Christian Haase-Schütz, Rainer Stal, Heinz Hertlein, Bernhard Sick

Auto-TLDR; Meta Training and Labelling for Unlabelled Data

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State-of-the-art, high capacity deep neural networks not only require large amounts of labelled training data, they are also highly susceptible to labelling errors in this data, typically resulting in large efforts and costs and therefore limiting the applicability of deep learning. To alleviate this issue, we propose a novel meta training and labelling scheme that is able to use inexpensive unlabelled data by taking advantage of the generalization power of deep neural networks. We show experimentally that by solely relying on one network architecture and our proposed scheme of combining self-training with pseudolabels, both label quality and resulting model accuracy, can be improved significantly. Our method achieves state-of-the-art results, while being architecture agnostic and therefore broadly applicable. Compared to other methods dealing with erroneous labels, our approach does neither require another network to be trained, nor does it necessarily need an additional, highly accurate reference label set. Instead of removing samples from a labelled set, our technique uses additional sensor data without the need for manual labelling. Furthermore, our approach can be used for semi-supervised learning.

Automatic Tuberculosis Detection Using Chest X-Ray Analysis with Position Enhanced Structural Information

Hermann Jepdjio Nkouanga, Szilard Vajda

Auto-TLDR; Automatic Chest X-ray Screening for Tuberculosis in Rural Population using Localized Region on Interest

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For Tuberculosis (TB) detection beside the more expensive diagnosis solutions such as culture or sputum smear analysis one could consider the automatic analysis of the chest X-ray (CXR). This could mimic the lung region reading by the radiologist and it could provide a cheap solution to analyze and diagnose pulmonary abnormalities such as TB which often co- occurs with HIV. This software based pulmonary screening can be a reliable and affordable solution for rural population in different parts of the world such as India, Africa, etc. Our fully automatic system is processing the incoming CXR image by applying image processing techniques to detect the region on interest (ROI) followed by a computationally cheap feature extraction involving edge detection using Laplacian of Gaussian which we enrich by counting the local distribution of the intensities. The choice to ”zoom in” the ROI and look for abnormalities locally is motivated by the fact that some pulmonary abnormalities are localized in specific regions of the lungs. Later on the classifiers can decide about the normal or abnormal nature of each lung X-ray. Our goal is to find a simple feature, instead of a combination of several ones, -proposed and promoted in recent years’ literature, which can properly describe the different pathological alterations in the lungs. Our experiments report results on two publicly available data collections1, namely the Shenzhen and the Montgomery collection. For performance evaluation, measures such as area under the curve (AUC), and accuracy (ACC) were considered, achieving AUC = 0.81 (ACC = 83.33%) and AUC = 0.96 (ACC = 96.35%) for the Montgomery and Schenzen collections, respectively. Several comparisons are also provided to other state- of-the-art systems reported recently in the field.

End-To-End Multi-Task Learning for Lung Nodule Segmentation and Diagnosis

Wei Chen, Qiuli Wang, Dan Yang, Xiaohong Zhang, Chen Liu, Yucong Li

Auto-TLDR; A novel multi-task framework for lung nodule diagnosis based on deep learning and medical features

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Computer-Aided Diagnosis (CAD) systems for lung nodule diagnosis based on deep learning have attracted much attention in recent years. However, most existing methods ignore the relationships between the segmentation and classification tasks, which leads to unstable performances. To address this problem, we propose a novel multi-task framework, which can provide lung nodule segmentation mask, malignancy prediction, and medical features for interpretable diagnosis at the same time. Our framework mainly contains two sub-network: (1) Multi-Channel Segmentation Sub-network (MSN) for lung nodule segmentation, and (2) Joint Classification Sub-network (JCN) for interpretable lung nodule diagnosis. In the proposed framework, we use U-Net down-sampling processes for extracting low-level deep learning features, which are shared by two sub-networks. The JCN forces the down-sampling processes to learn better lowlevel deep features, which lead to a better construct of segmentation masks. Meanwhile, two additional channels constructed by OTSU and super-pixel (SLIC) methods, are utilized as the guideline of the feature extraction. The proposed framework takes advantages of deep learning methods and classical methods, which can significantly improve the performances of all tasks. We evaluate the proposed framework on public dataset LIDCIDRI. Our framework achieves a promising Dice score of 86.43% in segmentation, 87.07% in malignancy level prediction, and convincing results in interpretable medical feature predictions.

Automatic Classification of Human Granulosa Cells in Assisted Reproductive Technology Using Vibrational Spectroscopy Imaging

Marina Paolanti, Emanuele Frontoni, Giorgia Gioacchini, Giorgini Elisabetta, Notarstefano Valentina, Zacà Carlotta, Carnevali Oliana, Andrea Borini, Marco Mameli

Auto-TLDR; Predicting Oocyte Quality in Assisted Reproductive Technology Using Machine Learning Techniques

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In the field of reproductive technology, the biochemical composition of female gametes has been successfully investigated with the use of vibrational spectroscopy. Currently, in assistive reproductive technology (ART), there are no shared criteria for the choice of oocyte, and automatic classification methods for the best quality oocytes have not yet been applied. In this paper, considering the lack of criteria in Assisted Reproductive Technology (ART), we use Machine Learning (ML) techniques to predict oocyte quality for a successful pregnancy. To improve the chances of successful implantation and minimize any complications during the pregnancy, Fourier transform infrared microspectroscopy (FTIRM) analysis has been applied on granulosa cells (GCs) collected along with the oocytes during oocyte aspiration, as it is routinely done in ART, and specific spectral biomarkers were selected by multivariate statistical analysis. A proprietary biological reference dataset (BRD) was successfully collected to predict the best oocyte for a successful pregnancy. Personal health information are stored, maintained and backed up using a cloud computing service. Using a user-friendly interface, the user will evaluate whether or not the selected oocyte will have a positive result. This interface includes a dashboard for retrospective analysis, reporting, real-time processing, and statistical analysis. The experimental results are promising and confirm the efficiency of the method in terms of classification metrics: precision, recall, and F1-score (F1) measures.

Semi-Supervised Generative Adversarial Networks with a Pair of Complementary Generators for Retinopathy Screening

Yingpeng Xie, Qiwei Wan, Hai Xie, En-Leng Tan, Yanwu Xu, Baiying Lei

Auto-TLDR; Generative Adversarial Networks for Retinopathy Diagnosis via Fundus Images

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Several typical types of retinopathy are major causes of blindness. However, early detection of retinopathy is quite not easy since few symptoms are observable in the early stage, attributing to the development of non-mydriatic retinal camera. These camera produces high-resolution retinal fundus images provide the possibility of Computer-Aided-Diagnosis (CAD) via deep learning to assist diagnosing retinopathy. Deep learning algorithms usually rely on a great number of labelled images which are expensive and time-consuming to obtain in the medical imaging area. Moreover, the random distribution of various lesions which often vary greatly in size also brings significant challenges to learn discriminative information from high-resolution fundus image. In this paper, we present generative adversarial networks simultaneously equipped with "good" generator and "bad" generator (GBGANs) to make up for the incomplete data distribution provided by limited fundus images. To improve the generative feasibility of generator, we introduce into pre-trained feature extractor to acquire condensed feature for each fundus image in advance. Experimental results on integrated three public iChallenge datasets show that the proposed GBGANs could fully utilize the available fundus images to identify retinopathy with little label cost.

Verifying the Causes of Adversarial Examples

Honglin Li, Yifei Fan, Frieder Ganz, Tony Yezzi, Payam Barnaghi

Auto-TLDR; Exploring the Causes of Adversarial Examples in Neural Networks

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The robustness of neural networks is challenged by adversarial examples that contain almost imperceptible perturbations to inputs which mislead a classifier to incorrect outputs in high confidence. Limited by the extreme difficulty in examining a high-dimensional image space thoroughly, research on explaining and justifying the causes of adversarial examples falls behind studies on attacks and defenses. In this paper, we present a collection of potential causes of adversarial examples and verify (or partially verify) them through carefully-designed controlled experiments. The major causes of adversarial examples include model linearity, one-sum constraint, and geometry of the categories. To control the effect of those causes, multiple techniques are applied such as $L_2$ normalization, replacement of loss functions, construction of reference datasets, and novel models using multi-layer perceptron probabilistic neural networks (MLP-PNN) and density estimation (DE). Our experiment results show that geometric factors tend to be more direct causes and statistical factors magnify the phenomenon, especially for assigning high prediction confidence. We hope this paper will inspire more studies to rigorously investigate the root causes of adversarial examples, which in turn provide useful guidance on designing more robust models.

Contextual Classification Using Self-Supervised Auxiliary Models for Deep Neural Networks

Sebastian Palacio, Philipp Engler, Jörn Hees, Andreas Dengel

Auto-TLDR; Self-Supervised Autogenous Learning for Deep Neural Networks

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Classification problems solved with deep neural networks (DNNs) typically rely on a closed world paradigm, and optimize over a single objective (e.g., minimization of the cross- entropy loss). This setup dismisses all kinds of supporting signals that can be used to reinforce the existence or absence of particular patterns. The increasing need for models that are interpretable by design makes the inclusion of said contextual signals a crucial necessity. To this end, we introduce the notion of Self-Supervised Autogenous Learning (SSAL). A SSAL objective is realized through one or more additional targets that are derived from the original supervised classification task, following architectural principles found in multi-task learning. SSAL branches impose low-level priors into the optimization process (e.g., grouping). The ability of using SSAL branches during inference, allow models to converge faster, focusing on a richer set of class-relevant features. We equip state-of-the-art DNNs with SSAL objectives and report consistent improvements for all of them on CIFAR100 and Imagenet. We show that SSAL models outperform similar state-of-the-art methods focused on contextual loss functions, auxiliary branches and hierarchical priors.

Estimation of Abundance and Distribution of SaltMarsh Plants from Images Using Deep Learning

Jayant Parashar, Suchendra Bhandarkar, Jacob Simon, Brian Hopkinson, Steven Pennings

Auto-TLDR; CNN-based approaches to automated plant identification and localization in salt marsh images

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Recent advances in computer vision and machine learning, most notably deep convolutional neural networks (CNNs), are exploited to identify and localize various plant species in salt marsh images. Three different approaches are explored that provide estimations of abundance and spatial distribution at varying levels of granularity in terms of spatial resolution. In the coarsest-grained approach, CNNs are tasked with identifying which of six plant species are present/absent in large patches within the salt marsh images. CNNs with diverse topological properties and attention mechanisms are shown capable of providing accurate estimations with >90 % precision and recall in the case of the more abundant plant species whereas the performance declines for less common plant species. Estimation of percent cover of each plant species is performed at a finer spatial resolution, where smaller image patches are extracted and the CNNs tasked with identifying the plant species or substrate at the center of the image patch. For the percent cover estimation task, the CNNs are observed to exhibit a performance profile similar to that for the presence/absence estimation task, but with an ~ 5-10% reduction in precision and recall. Finally, fine-grained estimation of the spatial distribution of the various plant species is performed via semantic segmentation. The Deeplab-V3 semantic segmentation architecture is observed to provide very accurate estimations for abundant plant species; however,a significant degradation in performance is observed in the case of less abundant plant species and, in extreme cases, rare plant classes are seen to be ignored entirely. Overall, a clear trade-off is observed between the CNN estimation quality and the spatial resolution of the underlying estimation thereby offering guidance for ecological applications of CNN-based approaches to automated plant identification and localization in salt marsh images.

The eXPose Approach to Crosslier Detection

Antonio Barata, Frank Takes, Hendrik Van Den Herik, Cor Veenman

Auto-TLDR; EXPose: Crosslier Detection Based on Supervised Category Modeling

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Transit of wasteful materials within the European Union is highly regulated through a system of permits. Waste processing costs vary greatly depending on the waste category of a permit. Therefore, companies may have a financial incentive to allege transporting waste with erroneous categorisation. Our goal is to assist inspectors in selecting potentially manipulated permits for further investigation, making their task more effective and efficient. Due to data limitations, a supervised learning approach based on historical cases is not possible. Standard unsupervised approaches, such as outlier detection and data quality-assurance techniques, are not suited since we are interested in targeting non-random modifications in both category and category-correlated features. For this purpose we (1) introduce the concept of crosslier: an anomalous instance of a category which lies across other categories; (2) propose eXPose: a novel approach to crosslier detection based on supervised category modelling; and (3) present the crosslier diagram: a visualisation tool specifically designed for domain experts to easily assess crossliers. We compare eXPose against traditional outlier detection methods in various benchmark datasets with synthetic crossliers and show the superior performance of our method in targeting these instances.