Understanding Compositional Structures in Art Historical Images using Pose and Gaze Priors

Image compositions as a tool for analysis of artworks is of extreme significance for art historians. These compositions are useful in analyzing the interactions in an image to study artists and their artworks. Max Imdahl in his work called Ikonik, along with other prominent art historians of the 20th century, underlined the aesthetic and semantic importance of the structural composition of an image. Understanding underlying compositional structures within images is challenging and a time consuming task. Generating these structures automatically using computer vision techniques (1) can help art historians towards their sophisticated analysis by saving lot of time; providing an overview and access to huge image repositories and (2) also provide an important step towards an understanding of man made imagery by machines. In this work, we attempt to automate this process using the existing state of the art machine learning techniques, without involving any form of training. Our approach, inspired by Max Imdahl's pioneering work, focuses on two central themes of image composition: (a) detection of action regions and action lines of the artwork; and (b) pose-based segmentation of foreground and background. Currently, our approach works for artworks comprising of protagonists (persons) in an image. In order to validate our approach qualitatively and quantitatively, we conduct a user study involving experts and non-experts. The outcome of the study highly correlates with our approach and also demonstrates its domain-agnostic capability. We have open-sourced the code at https://github.com/image-compostion-canvas-group/image-compostion-canvas.

Dogs as Model for Human Breast Cancer: A Completely Annotated Whole Slide Image Dataset

Canine mammary carcinoma (CMC) has been used as a model to investigate the pathogenesis of human breast cancer and the same grading scheme is commonly used to assess tumor malignancy in both. One key component of this grading scheme is the density of mitotic figures (MF). Current publicly available datasets on human breast cancer only provide annotations for small subsets of whole slide images (WSIs). We present a novel dataset of 21 WSIs of CMC completely annotated for MF. For this, a pathologist screened all WSIs for potential MF and structures with a similar appearance. A second expert blindly assigned labels, and for non-matching labels, a third expert assigned the final labels. Additionally, we used machine learning to identify previously undetected MF. Finally, we performed representation learning and two-dimensional projection to further increase the consistency of the annotations. Our dataset consists of 13,907 MF and 36,379 hard negatives. We achieved a mean F1-score of 0.791 on the test set and of up to 0.696 on a human breast cancer dataset.

The Effect of Various Strengths of Noises and Data Augmentations on Classification of Short Single-Lead ECG Signals Using Deep Neural Networks

Due to the multiple imperfections during the signal acquisition, Electrocardiogram (ECG) datasets are typically contaminated with numerous types of noise, like salt and pepper and baseline drift. These datasets may contain different recordings with various types of noise [1] and thus, denoising may not be the easiest task. Furthermore, usually, the number of labeled bio-signals is very limited for a proper classification task.

A Learning-based Method for Online Adjustment of C-arm Cone-Beam CT Source Trajectories for Artifact Avoidance

During spinal fusion surgery, screws are placed close to critical nerves suggesting the need for highly accurate screw placement. Verifying screw placement on high-quality tomographic imaging is essential. C-arm Cone-beam CT (CBCT) provides intraoperative 3D tomographic imaging which would allow for immediate verification and, if needed, revision. However, the reconstruction quality attainable with commercial CBCT devices is insufficient, predominantly due to severe metal artifacts in the presence of pedicle screws. These artifacts arise from a mismatch between the true physics of image formation and an idealized model thereof assumed during reconstruction. Prospectively acquiring views onto anatomy that are least affected by this mismatch can, therefore, improve reconstruction quality. We propose to adjust the C-arm CBCT source trajectory during the scan to optimize reconstruction quality with respect to a certain task, i.e. verification of screw placement. Adjustments are performed on-the-fly using a convolutional neural network that regresses a quality index for possible next views given the current x-ray image. Adjusting the CBCT trajectory to acquire the recommended views results in non-circular source orbits that avoid poor images, and thus, data inconsistencies. We demonstrate that convolutional neural networks trained on realistically simulated data are capable of predicting quality metrics that enable scene-specific adjustments of the CBCT source trajectory. Using both realistically simulated data and real CBCT acquisitions of a semi-anthropomorphic phantom, we show that tomographic reconstructions of the resulting scene-specific CBCT acquisitions exhibit improved image quality particularly in terms of metal artifacts. Since the optimization objective is implicitly encoded in a neural network, the proposed approach overcomes the need for 3D information at run-time.

Extracting and Leveraging Nodule Features with Lung Inpainting for Local Feature Augmentation

Chest X-ray (CXR) is the most common examination for fast detection of pulmonary abnormalities. Recently, automated algorithms have been developed to classify multiple diseases and abnormalities in CXR scans. However, because of the limited availability of scans containing nodules and the subtle properties of nodules in CXRs, state-of-the-art methods do not perform well on nodule classification. To create additional data for the training process, standard augmentation techniques are applied. However, the variance introduced by these methods are limited as the images are typically modified globally. In this paper, we propose a method for local feature augmentation by extracting local nodule features using a generative inpainting network. The network is applied to generate realistic, healthy tissue and structures in patches containing nodules. The nodules are entirely removed in the inpainted representation. The extraction of the nodule features is processed by subtraction of the inpainted patch from the nodule patch. With arbitrary displacement of the extracted nodules in the lung area across different CXR scans and further local modifications during training, we significantly increase the nodule classification performance and outperform state-of-the-art augmentation methods.

The Notary in the Haystack -- Countering Class Imbalance in Document Processing with CNNs

Notarial instruments are a category of documents. A notarial instrument can be distinguished from other documents by its notary sign, a prominent symbol in the certificate, which also allows to identify the document's issuer. Naturally, notarial instruments are underrepresented in regard to other documents. This makes a classification difficult because class imbalance in training data worsens the performance of Convolutional Neural Networks. In this work, we evaluate different countermeasures for this problem. They are applied to a binary classification and a segmentation task on a collection of medieval documents. In classification, notarial instruments are distinguished from other documents, while the notary sign is separated from the certificate in the segmentation task. We evaluate different techniques, such as data augmentation, under- and oversampling, as well as regularizing with focal loss. The combination of random minority oversampling and data augmentation leads to the best performance. In segmentation, we evaluate three loss-functions and their combinations, where only class-weighted dice loss was able to segment the notary sign sufficiently.

Re-ranking for Writer Identification and Writer Retrieval

Automatic writer identification is a common problem in document analysis. State-of-the-art methods typically focus on the feature extraction step with traditional or deep-learning-based techniques. In retrieval problems, re-ranking is a commonly used technique to improve the results. Re-ranking refines an initial ranking result by using the knowledge contained in the ranked result, e. g., by exploiting nearest neighbor relations. To the best of our knowledge, re-ranking has not been used for writer identification/retrieval. A possible reason might be that publicly available benchmark datasets contain only few samples per writer which makes a re-ranking less promising. We show that a re-ranking step based on k-reciprocal nearest neighbor relationships is advantageous for writer identification, even if only a few samples per writer are available. We use these reciprocal relationships in two ways: encode them into new vectors, as originally proposed, or integrate them in terms of query-expansion. We show that both techniques outperform the baseline results in terms of mAP on three writer identification datasets.

Are pathologist-defined labels reproducible? Comparison of the TUPAC16 mitotic figure dataset with an alternative set of labels

Pathologist-defined labels are the gold standard for histopathological data sets, regardless of well-known limitations in consistency for some tasks. To date, some datasets on mitotic figures are available and were used for development of promising deep learning-based algorithms. In order to assess robustness of those algorithms and reproducibility of their methods it is necessary to test on several independent datasets. The influence of different labeling methods of these available datasets is currently unknown. To tackle this, we present an alternative set of labels for the images of the auxiliary mitosis dataset of the TUPAC16 challenge. Additional to manual mitotic figure screening, we used a novel, algorithm-aided labeling process, that allowed to minimize the risk of missing rare mitotic figures in the images. All potential mitotic figures were independently assessed by two pathologists. The novel, publicly available set of labels contains 1,999 mitotic figures (+28.80%) and additionally includes 10,483 labels of cells with high similarities to mitotic figures (hard examples). We found significant difference comparing F_1 scores between the original label set (0.549) and the new alternative label set (0.735) using a standard deep learning object detection architecture. The models trained on the alternative set showed higher overall confidence values, suggesting a higher overall label consistency. Findings of the present study show that pathologists-defined labels may vary significantly resulting in notable difference in the model performance. Comparison of deep learning-based algorithms between independent datasets with different labeling methods should be done with caution.

Low Dose CT Denoising via Joint Bilateral Filtering and Intelligent Parameter Optimization

Denoising of clinical CT images is an active area for deep learning research. Current clinically approved methods use iterative reconstruction methods to reduce the noise in CT images. Iterative reconstruction techniques require multiple forward and backward projections, which are time-consuming and computationally expensive. Recently, deep learning methods have been successfully used to denoise CT images. However, conventional deep learning methods suffer from the 'black box' problem. They have low accountability, which is necessary for use in clinical imaging situations. In this paper, we use a Joint Bilateral Filter (JBF) to denoise our CT images. The guidance image of the JBF is estimated using a deep residual convolutional neural network (CNN). The range smoothing and spatial smoothing parameters of the JBF are tuned by a deep reinforcement learning task. Our actor first chooses a parameter, and subsequently chooses an action to tune the value of the parameter. A reward network is designed to direct the reinforcement learning task. Our denoising method demonstrates good denoising performance, while retaining structural information. Our method significantly outperforms state of the art deep neural networks. Moreover, our method has only two parameters, which makes it significantly more interpretable and reduces the 'black box' problem. We experimentally measure the impact of our intelligent parameter optimization and our reward network. Our studies show that our current setup yields the best results in terms of structural preservation.

JBFnet -- Low Dose CT Denoising by Trainable Joint Bilateral Filtering

Deep neural networks have shown great success in low dose CT denoising. However, most of these deep neural networks have several hundred thousand trainable parameters. This, combined with the inherent non-linearity of the neural network, makes the deep neural network diffcult to understand with low accountability. In this study we introduce JBFnet, a neural network for low dose CT denoising. The architecture of JBFnet implements iterative bilateral filtering. The filter functions of the Joint Bilateral Filter (JBF) are learned via shallow convolutional networks. The guidance image is estimated by a deep neural network. JBFnet is split into four filtering blocks, each of which performs Joint Bilateral Filtering. Each JBF block consists of 112 trainable parameters, making the noise removal process comprehendable. The Noise Map (NM) is added after filtering to preserve high level features. We train JBFnet with the data from the body scans of 10 patients, and test it on the AAPM low dose CT Grand Challenge dataset. We compare JBFnet with state-of-the-art deep learning networks. JBFnet outperforms CPCE3D, GAN and deep GFnet on the test dataset in terms of noise removal while preserving structures. We conduct several ablation studies to test the performance of our network architecture and training method. Our current setup achieves the best performance, while still maintaining behavioural accountability.