3D Medical Image Lossless Compressor Using Deep Learning Approaches

The ever-increasing importance of accelerated information processing, communica-tion, and storing are major requirements within the big-data era revolution. With the extensive rise in data availability, handy information acquisition, and growing data rate, a critical challenge emerges in efficient handling. Even with advanced technical hardware developments and multiple Graphics Processing Units (GPUs) availability, this demand is still highly promoted to utilise these technologies effectively. Health-care systems are one of the domains yielding explosive data growth. Especially when considering their modern scanners abilities, which annually produce higher-resolution and more densely sampled medical images, with increasing requirements for massive storage capacity. The bottleneck in data transmission and storage would essentially be handled with an effective compression method. Since medical information is critical and imposes an influential role in diagnosis accuracy, it is strongly encouraged to guarantee exact reconstruction with no loss in quality, which is the main objective of any lossless compression algorithm. Given the revolutionary impact of Deep Learning (DL) methods in solving many tasks while achieving the state of the art results, includ-ing data compression, this opens tremendous opportunities for contributions. While considerable efforts have been made to address lossy performance using learning-based approaches, less attention was paid to address lossless compression. This PhD thesis investigates and proposes novel learning-based approaches for compressing 3D medical images losslessly.Firstly, we formulate the lossless compression task as a supervised sequential prediction problem, whereby a model learns a projection function to predict a target voxel given sequence of samples from its spatially surrounding voxels. Using such 3D local sampling information efficiently exploits spatial similarities and redundancies in a volumetric medical context by utilising such a prediction paradigm. The proposed NN-based data predictor is trained to minimise the differences with the original data values while the residual errors are encoded using arithmetic coding to allow lossless reconstruction.Following this, we explore the effectiveness of Recurrent Neural Networks (RNNs) as a 3D predictor for learning the mapping function from the spatial medical domain (16 bit-depths). We analyse Long Short-Term Memory (LSTM) models’ generalisabil-ity and robustness in capturing the 3D spatial dependencies of a voxel’s neighbourhood while utilising samples taken from various scanning settings. We evaluate our proposed MedZip models in compressing unseen Computerized Tomography (CT) and Magnetic Resonance Imaging (MRI) modalities losslessly, compared to other state-of-the-art lossless compression standards.This work investigates input configurations and sampling schemes for a many-to-one sequence prediction model, specifically for compressing 3D medical images (16 bit-depths) losslessly. The main objective is to determine the optimal practice for enabling the proposed LSTM model to achieve a high compression ratio and fast encoding-decoding performance. A solution for a non-deterministic environments problem was also proposed, allowing models to run in parallel form without much compression performance drop. Compared to well-known lossless codecs, experimental evaluations were carried out on datasets acquired by different hospitals, representing different body segments, and have distinct scanning modalities (i.e. CT and MRI).To conclude, we present a novel data-driven sampling scheme utilising weighted gradient scores for training LSTM prediction-based models. The objective is to determine whether some training samples are significantly more informative than others, specifically in medical domains where samples are available on a scale of billions. The effectiveness of models trained on the presented importance sampling scheme was evaluated compared to alternative strategies such as uniform, Gaussian, and sliced-based sampling

Classification centric Lloyd-Max quantizer for predictive feature errors

Conventional forms of image and video compression have a singular objective to optimize visual image quality in the presence of a target compression ratio. However, if we would like to perform machine analysis of these compressed images, what we as humans view as interpretable is distinct from what machines may find informative. This paper will discuss compression techniques with the dual purpose of maintaining image quality and preserving image features for machine classification. The format of our system is a two-part predictive encoder. Features are extracted from both the original and JPEG 2000 compressed images. The difference between these feature vectors are the resulting error vectors due to compression. We seek to build an effi cient quantizer to encode the predictive feature errors. We evaluate the effectiveness of our quantizer by examining its ability to recover accuracy lost in an image classifier due to compression. We present the Classification Centric Lloyd-Max Quantizer as an effi cient vector quantizer to restore feature vector integrity and maintain high compression ratios. We compare previous work that utilizes scalar Lloyd-Max Quantizers and gradient descent methods to build an optimal vector quantizer against our proposed system. We demonstrate the advantages and disadvantages of each approach with respect to classification accuracy, compression ratio, training time, and constraints on the classification problem.Ope

Secure and Privacy-preserving Data Sharing in the Cloud based on Lossless Image Coding

Abstract Image and video processing in the encrypted domain has recently emerged as a promising research area to tackle privacy-related data processing issues. In particular, reversible data hiding in the encrypted domain has been suggested as a solution to store and manage digital images securely in the cloud while preserving their confidentiality. However, although efficiency has been claimed with reversible data hiding techniques in encrypted images (RDHEI), reported results show that the cloud service provider cannot add more than 1 bit per pixel (bpp) of additional data to manage stored images. This paper highlights the weakness of RDHEI as a suggested approach for secure and privacy-preserving cloud computing. In particular, we propose a new, simple, and efficient approach that offers the same level of data security and confidentiality in the cloud without the process of reversible data hiding. The proposed idea is to compress the image via a lossless image coder in order to create space before encryption. This space is then filled with a randomly generated sequence and combined with an encrypted version of the compressed bit stream to form a full resolution encrypted image in the pixel domain. The cloud service provider uses the created room in the encrypted image to add additional data and produces an encrypted image containing additional data in a similar fashion. Assessed with the lossless Embedded Block Coding with Optimized Truncation (EBCOT) algorithm on natural images, the proposed scheme has been shown to exceed the capacity of 3 bpp of additional data while maintaining data security and confidentiality

Finding Interpretable Class-Specific Patterns through Efficient Neural Search

Discovering patterns in data that best describe the differences between classes allows to hypothesize and reason about class-specific mechanisms. In molecular biology, for example, this bears promise of advancing the understanding of cellular processes differing between tissues or diseases, which could lead to novel treatments. To be useful in practice, methods that tackle the problem of finding such differential patterns have to be readily interpretable by domain experts, and scalable to the extremely high-dimensional data. In this work, we propose a novel, inherently interpretable binary neural network architecture DIFFNAPS that extracts differential patterns from data. DiffNaps is scalable to hundreds of thousands of features and robust to noise, thus overcoming the limitations of current state-of-the-art methods in large-scale applications such as in biology. We show on synthetic and real world data, including three biological applications, that, unlike its competitors, DiffNaps consistently yields accurate, succinct, and interpretable class description

Towards visualization and searching :a dual-purpose video coding approach

In modern video applications, the role of the decoded video is much more than filling a screen for visualization. To offer powerful video-enabled applications, it is increasingly critical not only to visualize the decoded video but also to provide efficient searching capabilities for similar content. Video surveillance and personal communication applications are critical examples of these dual visualization and searching requirements. However, current video coding solutions are strongly biased towards the visualization needs. In this context, the goal of this work is to propose a dual-purpose video coding solution targeting both visualization and searching needs by adopting a hybrid coding framework where the usual pixel-based coding approach is combined with a novel feature-based coding approach. In this novel dual-purpose video coding solution, some frames are coded using a set of keypoint matches, which not only allow decoding for visualization, but also provide the decoder valuable feature-related information, extracted at the encoder from the original frames, instrumental for efficient searching. The proposed solution is based on a flexible joint Lagrangian optimization framework where pixel-based and feature-based processing are combined to find the most appropriate trade-off between the visualization and searching performances. Extensive experimental results for the assessment of the proposed dual-purpose video coding solution under meaningful test conditions are presented. The results show the flexibility of the proposed coding solution to achieve different optimization trade-offs, notably competitive performance regarding the state-of-the-art HEVC standard both in terms of visualization and searching performance.Em modernas aplicações de vídeo, o papel do vídeo decodificado é muito mais que simplesmente preencher uma tela para visualização. Para oferecer aplicações mais poderosas por meio de sinais de vídeo,é cada vez mais crítico não apenas considerar a qualidade do conteúdo objetivando sua visualização, mas também possibilitar meios de realizar busca por conteúdos semelhantes. Requisitos de visualização e de busca são considerados, por exemplo, em modernas aplicações de vídeo vigilância e comunicações pessoais. No entanto, as atuais soluções de codificação de vídeo são fortemente voltadas aos requisitos de visualização. Nesse contexto, o objetivo deste trabalho é propor uma solução de codificação de vídeo de propósito duplo, objetivando tanto requisitos de visualização quanto de busca. Para isso, é proposto um arcabouço de codificação em que a abordagem usual de codificação de pixels é combinada com uma nova abordagem de codificação baseada em features visuais. Nessa solução, alguns quadros são codificados usando um conjunto de pares de keypoints casados, possibilitando não apenas visualização, mas também provendo ao decodificador valiosas informações de features visuais, extraídas no codificador a partir do conteúdo original, que são instrumentais em aplicações de busca. A solução proposta emprega um esquema flexível de otimização Lagrangiana onde o processamento baseado em pixel é combinado com o processamento baseado em features visuais objetivando encontrar um compromisso adequado entre os desempenhos de visualização e de busca. Os resultados experimentais mostram a flexibilidade da solução proposta em alcançar diferentes compromissos de otimização, nomeadamente desempenho competitivo em relação ao padrão HEVC tanto em termos de visualização quanto de busca

Deep Learning based Recommender System: A Survey and New Perspectives

With the ever-growing volume of online information, recommender systems have been an effective strategy to overcome such information overload. The utility of recommender systems cannot be overstated, given its widespread adoption in many web applications, along with its potential impact to ameliorate many problems related to over-choice. In recent years, deep learning has garnered considerable interest in many research fields such as computer vision and natural language processing, owing not only to stellar performance but also the attractive property of learning feature representations from scratch. The influence of deep learning is also pervasive, recently demonstrating its effectiveness when applied to information retrieval and recommender systems research. Evidently, the field of deep learning in recommender system is flourishing. This article aims to provide a comprehensive review of recent research efforts on deep learning based recommender systems. More concretely, we provide and devise a taxonomy of deep learning based recommendation models, along with providing a comprehensive summary of the state-of-the-art. Finally, we expand on current trends and provide new perspectives pertaining to this new exciting development of the field.Comment: The paper has been accepted by ACM Computing Surveys. https://doi.acm.org/10.1145/328502