Extreme multi-label deep neural classification of Spanish health records according to the International Classification of Diseases

111 p.Este trabajo trata sobre la minería de textos clínicos, un campo del Procesamiento del Lenguaje Natural aplicado al dominio biomédico. El objetivo es automatizar la tarea de codificación médica. Los registros electrónicos de salud (EHR) son documentos que contienen información clínica sobre la salud de unpaciente. Los diagnósticos y procedimientos médicos plasmados en la Historia Clínica Electrónica están codificados con respecto a la Clasificación Internacional de Enfermedades (CIE). De hecho, la CIE es la base para identificar estadísticas de salud internacionales y el estándar para informar enfermedades y condiciones de salud. Desde la perspectiva del aprendizaje automático, el objetivo es resolver un problema extremo de clasificación de texto de múltiples etiquetas, ya que a cada registro de salud se le asignan múltiples códigos ICD de un conjunto de más de 70 000 términos de diagnóstico. Una cantidad importante de recursos se dedican a la codificación médica, una laboriosa tarea que actualmente se realiza de forma manual. Los EHR son narraciones extensas, y los codificadores médicos revisan los registros escritos por los médicos y asignan los códigos ICD correspondientes. Los textos son técnicos ya que los médicos emplean una jerga médica especializada, aunque rica en abreviaturas, acrónimos y errores ortográficos, ya que los médicos documentan los registros mientras realizan la práctica clínica real. Paraabordar la clasificación automática de registros de salud, investigamos y desarrollamos un conjunto de técnicas de clasificación de texto de aprendizaje profundo

Text Classification

There is an abundance of text data in this world but most of it is raw. We need to extract information from this data to make use of it. One way to extract this information from raw text is to apply informative labels drawn from a pre-defined fixed set i.e. Text Classification. In this thesis, we focus on the general problem of text classification, and work towards solving challenges associated to binary/multi-class/multi-label classification. More specifically, we deal with the problem of (i) Zero-shot labels during testing; (ii) Active learning for text screening; (iii) Multi-label classification under low supervision; (iv) Structured label space; (v) Classifying pairs of words in raw text i.e. Relation Extraction. For (i), we use a zero-shot classification model that utilizes independently learned semantic embeddings. Regarding (ii), we propose a novel active learning algorithm that reduces problem of bias in naive active learning algorithms. For (iii), we propose neural candidate-selector architecture that starts from a set of high-recall candidate labels to obtain high-precision predictions. In the case of (iv), we proposed an attention based neural tree decoder that recursively decodes an abstract into the ontology tree. For (v), we propose using second-order relations that are derived by explicitly connecting pairs of words via context token(s) for improved relation extraction. We use a wide variety of both traditional and deep machine learning tools. More specifically, we used traditional machine learning models like multi-valued linear regression and logistic regression for (i, ii), deep convolutional neural networks for (iii), recurrent neural networks for (iv) and transformer networks for (v)

Learning Interpretable Rules for Multi-label Classification

Multi-label classification (MLC) is a supervised learning problem in which, contrary to standard multiclass classification, an instance can be associated with several class labels simultaneously. In this chapter, we advocate a rule-based approach to multi-label classification. Rule learning algorithms are often employed when one is not only interested in accurate predictions, but also requires an interpretable theory that can be understood, analyzed, and qualitatively evaluated by domain experts. Ideally, by revealing patterns and regularities contained in the data, a rule-based theory yields new insights in the application domain. Recently, several authors have started to investigate how rule-based models can be used for modeling multi-label data. Discussing this task in detail, we highlight some of the problems that make rule learning considerably more challenging for MLC than for conventional classification. While mainly focusing on our own previous work, we also provide a short overview of related work in this area.Comment: Preprint version. To appear in: Explainable and Interpretable Models in Computer Vision and Machine Learning. The Springer Series on Challenges in Machine Learning. Springer (2018). See http://www.ke.tu-darmstadt.de/bibtex/publications/show/3077 for further informatio

Diagnosis Code Assignment Using Sparsity-Based Disease Correlation Embedding

© 1989-2012 IEEE. With the latest developments in database technologies, it becomes easier to store the medical records of hospital patients from their first day of admission than was previously possible. In Intensive Care Units (ICU), modern medical information systems can record patient events in relational databases every second. Knowledge mining from these huge volumes of medical data is beneficial to both caregivers and patients. Given a set of electronic patient records, a system that effectively assigns the disease labels can facilitate medical database management and also benefit other researchers, e.g., pathologists. In this paper, we have proposed a framework to achieve that goal. Medical chart and note data of a patient are used to extract distinctive features. To encode patient features, we apply a Bag-of-Words encoding method for both chart and note data. We also propose a model that takes into account both global information and local correlations between diseases. Correlated diseases are characterized by a graph structure that is embedded in our sparsity-based framework. Our algorithm captures the disease relevance when labeling disease codes rather than making individual decision with respect to a specific disease. At the same time, the global optimal values are guaranteed by our proposed convex objective function. Extensive experiments have been conducted on a real-world large-scale ICU database. The evaluation results demonstrate that our method improves multi-label classification results by successfully incorporating disease correlations