Prototypes for Content-Based Image Retrieval in Clinical Practice

Content-based image retrieval (CBIR) has been proposed as key technology for computer-aided diagnostics (CAD). This paper reviews the state of the art and future challenges in CBIR for CAD applied to clinical practice

Content-based Information Retrieval via Nearest Neighbor Search

Content-based information retrieval (CBIR) has attracted significant interest in the past few years. When given a search query, the search engine will compare the query with all the stored information in the database through nearest neighbor search. Finally, the system will return the most similar items. We contribute to the CBIR research the following: firstly, Distance Metric Learning (DML) is studied to improve retrieval accuracy of nearest neighbor search. Additionally, Hash Function Learning (HFL) is considered to accelerate the retrieval process. On one hand, a new local metric learning framework is proposed - Reduced-Rank Local Metric Learning (R2LML). By considering a conical combination of Mahalanobis metrics, the proposed method is able to better capture information like data\u27s similarity and location. A regularization to suppress the noise and avoid over-fitting is also incorporated into the formulation. Based on the different methods to infer the weights for the local metric, we considered two frameworks: Transductive Reduced-Rank Local Metric Learning (T-R2LML), which utilizes transductive learning, while Efficient Reduced-Rank Local Metric Learning (E-R2LML)employs a simpler and faster approximated method. Besides, we study the convergence property of the proposed block coordinate descent algorithms for both our frameworks. The extensive experiments show the superiority of our approaches. On the other hand, *Supervised Hash Learning (*SHL), which could be used in supervised, semi-supervised and unsupervised learning scenarios, was proposed in the dissertation. By considering several codewords which could be learned from the data, the proposed method naturally derives to several Support Vector Machine (SVM) problems. After providing an efficient training algorithm, we also study the theoretical generalization bound of the new hashing framework. In the final experiments, *SHL outperforms many other popular hash function learning methods. Additionally, in order to cope with large data sets, we also conducted experiments running on big data using a parallel computing software package, namely LIBSKYLARK

A graph-based approach for the retrieval of multi-modality medical images

Medical imaging has revolutionised modern medicine and is now an integral aspect of diagnosis and patient monitoring. The development of new imaging devices for a wide variety of clinical cases has spurred an increase in the data volume acquired in hospitals. These large data collections offer opportunities for search-based applications in evidence-based diagnosis, education, and biomedical research. However, conventional search methods that operate upon manual annotations are not feasible for this data volume. Content-based image retrieval (CBIR) is an image search technique that uses automatically derived visual features as search criteria and has demonstrable clinical benefits. However, very few studies have investigated the CBIR of multi-modality medical images, which are making a monumental impact in healthcare, e.g., combined positron emission tomography and computed tomography (PET-CT) for cancer diagnosis. In this thesis, we propose a new graph-based method for the CBIR of multi-modality medical images. We derive a graph representation that emphasises the spatial relationships between modalities by structurally constraining the graph based on image features, e.g., spatial proximity of tumours and organs. We also introduce a graph similarity calculation algorithm that prioritises the relationships between tumours and related organs. To enable effective human interpretation of retrieved multi-modality images, we also present a user interface that displays graph abstractions alongside complex multi-modality images. Our results demonstrated that our method achieved a high precision when retrieving images on the basis of tumour location within organs. The evaluation of our proposed UI design by user surveys revealed that it improved the ability of users to interpret and understand the similarity between retrieved PET-CT images. The work in this thesis advances the state-of-the-art by enabling a novel approach for the retrieval of multi-modality medical images

Recuperação de informação multimodal em repositórios de imagem médica

The proliferation of digital medical imaging modalities in hospitals and other diagnostic facilities has created huge repositories of valuable data, often not fully explored. Moreover, the past few years show a growing trend of data production. As such, studying new ways to index, process and retrieve medical images becomes an important subject to be addressed by the wider community of radiologists, scientists and engineers. Content-based image retrieval, which encompasses various methods, can exploit the visual information of a medical imaging archive, and is known to be beneficial to practitioners and researchers. However, the integration of the latest systems for medical image retrieval into clinical workflows is still rare, and their effectiveness still show room for improvement. This thesis proposes solutions and methods for multimodal information retrieval, in the context of medical imaging repositories. The major contributions are a search engine for medical imaging studies supporting multimodal queries in an extensible archive; a framework for automated labeling of medical images for content discovery; and an assessment and proposal of feature learning techniques for concept detection from medical images, exhibiting greater potential than feature extraction algorithms that were pertinently used in similar tasks. These contributions, each in their own dimension, seek to narrow the scientific and technical gap towards the development and adoption of novel multimodal medical image retrieval systems, to ultimately become part of the workflows of medical practitioners, teachers, and researchers in healthcare.A proliferação de modalidades de imagem médica digital, em hospitais, clínicas e outros centros de diagnóstico, levou à criação de enormes repositórios de dados, frequentemente não explorados na sua totalidade. Além disso, os últimos anos revelam, claramente, uma tendência para o crescimento da produção de dados. Portanto, torna-se importante estudar novas maneiras de indexar, processar e recuperar imagens médicas, por parte da comunidade alargada de radiologistas, cientistas e engenheiros. A recuperação de imagens baseada em conteúdo, que envolve uma grande variedade de métodos, permite a exploração da informação visual num arquivo de imagem médica, o que traz benefícios para os médicos e investigadores. Contudo, a integração destas soluções nos fluxos de trabalho é ainda rara e a eficácia dos mais recentes sistemas de recuperação de imagem médica pode ser melhorada. A presente tese propõe soluções e métodos para recuperação de informação multimodal, no contexto de repositórios de imagem médica. As contribuições principais são as seguintes: um motor de pesquisa para estudos de imagem médica com suporte a pesquisas multimodais num arquivo extensível; uma estrutura para a anotação automática de imagens; e uma avaliação e proposta de técnicas de representation learning para deteção automática de conceitos em imagens médicas, exibindo maior potencial do que as técnicas de extração de features visuais outrora pertinentes em tarefas semelhantes. Estas contribuições procuram reduzir as dificuldades técnicas e científicas para o desenvolvimento e adoção de sistemas modernos de recuperação de imagem médica multimodal, de modo a que estes façam finalmente parte das ferramentas típicas dos profissionais, professores e investigadores da área da saúde.Programa Doutoral em Informátic

Relevance Prediction from Eye-movements Using Semi-interpretable Convolutional Neural Networks

We propose an image-classification method to predict the perceived-relevance of text documents from eye-movements. An eye-tracking study was conducted where participants read short news articles, and rated them as relevant or irrelevant for answering a trigger question. We encode participants' eye-movement scanpaths as images, and then train a convolutional neural network classifier using these scanpath images. The trained classifier is used to predict participants' perceived-relevance of news articles from the corresponding scanpath images. This method is content-independent, as the classifier does not require knowledge of the screen-content, or the user's information-task. Even with little data, the image classifier can predict perceived-relevance with up to 80% accuracy. When compared to similar eye-tracking studies from the literature, this scanpath image classification method outperforms previously reported metrics by appreciable margins. We also attempt to interpret how the image classifier differentiates between scanpaths on relevant and irrelevant documents

Using Search Term Positions for Determining Document Relevance

The technological advancements in computer networks and the substantial reduction of their production costs have caused a massive explosion of digitally stored information. In particular, textual information is becoming increasingly available in electronic form. Finding text documents dealing with a certain topic is not a simple task. Users need tools to sift through non-relevant information and retrieve only pieces of information relevant to their needs. The traditional methods of information retrieval (IR) based on search term frequency have somehow reached their limitations, and novel ranking methods based on hyperlink information are not applicable to unlinked documents. The retrieval of documents based on the positions of search terms in a document has the potential of yielding improvements, because other terms in the environment where a search term appears (i.e. the neighborhood) are considered. That is to say, the grammatical type, position and frequency of other words help to clarify and specify the meaning of a given search term. However, the required additional analysis task makes position-based methods slower than methods based on term frequency and requires more storage to save the positions of terms. These drawbacks directly affect the performance of the most user critical phase of the retrieval process, namely query evaluation time, which explains the scarce use of positional information in contemporary retrieval systems. This thesis explores the possibility of extending traditional information retrieval systems with positional information in an efficient manner that permits us to optimize the retrieval performance by handling term positions at query evaluation time. To achieve this task, several abstract representation of term positions to efficiently store and operate on term positional data are investigated. In the Gauss model, descriptive statistics methods are used to estimate term positional information, because they minimize outliers and irregularities in the data. The Fourier model is based on Fourier series to represent positional information. In the Hilbert model, functional analysis methods are used to provide reliable term position estimations and simple mathematical operators to handle positional data. The proposed models are experimentally evaluated using standard resources of the IR research community (Text Retrieval Conference). All experiments demonstrate that the use of positional information can enhance the quality of search results. The suggested models outperform state-of-the-art retrieval utilities. The term position models open new possibilities to analyze and handle textual data. For instance, document clustering and compression of positional data based on these models could be interesting topics to be considered in future research