Breaking Computational Barriers to Perform Time Series Pattern Mining at Scale and at the Edge

Uncovering repeated behavior in time series is an important problem in many domains such as medicine, geophysics, meteorology, and many more. With the continuing surge of smart/embedded devices generating time series data, there is an ever growing need to perform analysis on datasets of increasing size. Additionally, there is an increasing need for analysis at low power edge devices due to latency problems inherent to the speed of light and the sheer amount of data being recorded. The matrix profile has proven to be a tool highly suitable for pattern mining in time series; however, a naive approach to computing the matrix profile makes it impossible to use effectively in both the cloud and at the edge. This dissertation shows how, through the use of GPUs and machine learning, the matrix profile is computed more feasibly, both at cloud-scale and at sensor-scale. In addition, it illustrates why both of these types of computation are important and what new insights they can provide to practitioners working with time series data

Hadooping the genome: The impact of big data tools on biology

This essay examines the consequences of the so-called ‘big data’ technologies in biomedicine. Analyzing algorithms and data structures used by biologists can provide insight into how biologists perceive and understand their objects of study. As such, I examine some of the most widely used algorithms in genomics: those used for sequence comparison or sequence mapping. These algorithms are derived from the powerful tools for text searching and indexing that have been developed since the 1950s and now play an important role in online search. In biology, sequence comparison algorithms have been used to assemble genomes, process next-generation sequence data, and, most recently, for ‘precision medicine.’ I argue that the predominance of a specific set of text-matching and pattern-finding tools has influenced problem choice in genomics. It allowed genomics to continue to think of genomes as textual objects and to increasingly lock genomics into ‘big data’-driven text-searching methods. Many ‘big data’ methods are designed for finding patterns in human-written texts. However, genomes and other’ omic data are not human-written and are unlikely to be meaningful in the same way

Evaluation and optimization of Big Data Processing on High Performance Computing Systems

Programa Oficial de Doutoramento en Investigación en Tecnoloxías da Información. 524V01[Resumo] Hoxe en día, moitas organizacións empregan tecnoloxías Big Data para extraer información de grandes volumes de datos. A medida que o tamaño destes volumes crece, satisfacer as demandas de rendemento das aplicacións de procesamento de datos masivos faise máis difícil. Esta Tese céntrase en avaliar e optimizar estas aplicacións, presentando dúas novas ferramentas chamadas BDEv e Flame-MR. Por unha banda, BDEv analiza o comportamento de frameworks de procesamento Big Data como Hadoop, Spark e Flink, moi populares na actualidade. BDEv xestiona a súa configuración e despregamento, xerando os conxuntos de datos de entrada e executando cargas de traballo previamente elixidas polo usuario. Durante cada execución, BDEv extrae diversas métricas de avaliación que inclúen rendemento, uso de recursos, eficiencia enerxética e comportamento a nivel de microarquitectura. Doutra banda, Flame-MR permite optimizar o rendemento de aplicacións Hadoop MapReduce. En xeral, o seu deseño baséase nunha arquitectura dirixida por eventos capaz de mellorar a eficiencia dos recursos do sistema mediante o solapamento da computación coas comunicacións. Ademais de reducir o número de copias en memoria que presenta Hadoop, emprega algoritmos eficientes para ordenar e mesturar os datos. Flame-MR substitúe o motor de procesamento de datos MapReduce de xeito totalmente transparente, polo que non é necesario modificar o código de aplicacións xa existentes. A mellora de rendemento de Flame-MR foi avaliada de maneira exhaustiva en sistemas clúster e cloud, executando tanto benchmarks estándar coma aplicacións pertencentes a casos de uso reais. Os resultados amosan unha redución de entre un 40% e un 90% do tempo de execución das aplicacións. Esta Tese proporciona aos usuarios e desenvolvedores de Big Data dúas potentes ferramentas para analizar e comprender o comportamento de frameworks de procesamento de datos e reducir o tempo de execución das aplicacións sen necesidade de contar con coñecemento experto para elo.[Resumen] Hoy en día, muchas organizaciones utilizan tecnologías Big Data para extraer información de grandes volúmenes de datos. A medida que el tamaño de estos volúmenes crece, satisfacer las demandas de rendimiento de las aplicaciones de procesamiento de datos masivos se vuelve más difícil. Esta Tesis se centra en evaluar y optimizar estas aplicaciones, presentando dos nuevas herramientas llamadas BDEv y Flame-MR. Por un lado, BDEv analiza el comportamiento de frameworks de procesamiento Big Data como Hadoop, Spark y Flink, muy populares en la actualidad. BDEv gestiona su configuración y despliegue, generando los conjuntos de datos de entrada y ejecutando cargas de trabajo previamente elegidas por el usuario. Durante cada ejecución, BDEv extrae diversas métricas de evaluación que incluyen rendimiento, uso de recursos, eficiencia energética y comportamiento a nivel de microarquitectura. Por otro lado, Flame-MR permite optimizar el rendimiento de aplicaciones Hadoop MapReduce. En general, su diseño se basa en una arquitectura dirigida por eventos capaz de mejorar la eficiencia de los recursos del sistema mediante el solapamiento de la computación con las comunicaciones. Además de reducir el número de copias en memoria que presenta Hadoop, utiliza algoritmos eficientes para ordenar y mezclar los datos. Flame-MR reemplaza el motor de procesamiento de datos MapReduce de manera totalmente transparente, por lo que no se necesita modificar el código de aplicaciones ya existentes. La mejora de rendimiento de Flame-MR ha sido evaluada de manera exhaustiva en sistemas clúster y cloud, ejecutando tanto benchmarks estándar como aplicaciones pertenecientes a casos de uso reales. Los resultados muestran una reducción de entre un 40% y un 90% del tiempo de ejecución de las aplicaciones. Esta Tesis proporciona a los usuarios y desarrolladores de Big Data dos potentes herramientas para analizar y comprender el comportamiento de frameworks de procesamiento de datos y reducir el tiempo de ejecución de las aplicaciones sin necesidad de contar con conocimiento experto para ello.[Abstract] Nowadays, Big Data technologies are used by many organizations to extract valuable information from large-scale datasets. As the size of these datasets increases, meeting the huge performance requirements of data processing applications becomes more challenging. This Thesis focuses on evaluating and optimizing these applications by proposing two new tools, namely BDEv and Flame-MR. On the one hand, BDEv allows to thoroughly assess the behavior of widespread Big Data processing frameworks such as Hadoop, Spark and Flink. It manages the configuration and deployment of the frameworks, generating the input datasets and launching the workloads specified by the user. During each workload, it automatically extracts several evaluation metrics that include performance, resource utilization, energy efficiency and microarchitectural behavior. On the other hand, Flame-MR optimizes the performance of existing Hadoop MapReduce applications. Its overall design is based on an event-driven architecture that improves the efficiency of the system resources by pipelining data movements and computation. Moreover, it avoids redundant memory copies present in Hadoop, while also using efficient sort and merge algorithms for data processing. Flame-MR replaces the underlying MapReduce data processing engine in a transparent way and thus the source code of existing applications does not require to be modified. The performance benefits provided by Flame- MR have been thoroughly evaluated on cluster and cloud systems by using both standard benchmarks and real-world applications, showing reductions in execution time that range from 40% to 90%. This Thesis provides Big Data users with powerful tools to analyze and understand the behavior of data processing frameworks and reduce the execution time of the applications without requiring expert knowledge

Privacy-preserving distributed data mining

This thesis is concerned with privacy-preserving distributed data mining algorithms. The main challenges in this setting are inference attacks and the formation of collusion groups. The inference problem is the reconstruction of sensitive data by attackers from non-sensitive sources, such as intermediate results, exchanged messages, or public information. Moreover, in a distributed scenario, malicious insiders can organize collusion groups to deploy more effective inference attacks. This thesis shows that existing privacy measures do not adequately protect privacy against inference and collusion. Therefore, in this thesis, new measures based on information theory are developed to overcome the identiffied limitations. Furthermore, a new distributed data clustering algorithm is presented. The clustering approach is based on a kernel density estimates approximation that generates a controlled amount of ambiguity in the density estimates and provides privacy to original data. Besides, this thesis also introduces the first privacy-preserving algorithms for frequent pattern discovery in a distributed time series. Time series are transformed into a set of n-dimensional data points and finding frequent patterns reduced to finding local maxima in the n-dimensional density space. The proposed algorithms are linear in the size of the dataset with low communication costs, validated by experimental evaluation using different datasets.Diese Arbeit befasst sich mit vertraulichkeitsbewahrendem Data Mining in verteilten Umgebungen mit Schwerpunkt auf ausgewählten N-Agenten-Angriffsszenarien für das Inferenzproblem im Data-Clustering und der Zeitreihenanalyse. Dabei handelt es sich um Angriffe von einzelnen oder Teilgruppen von Agenten innerhalb einer verteilten Data Mining-Gruppe oder von einem einzelnen Agenten außerhalb dieser Gruppe. Zunächst werden in dieser Arbeit zwei neue Privacy-Maße vorgestellt, die im Gegensatz zu bislang existierenden, die im verteilten Data Mining allgemein geforderte Eigenschaften zur Vertraulichkeitsbewahrung erfüllen und bei denen sich der gemessene Grad der Vertraulichkeit auf die verwendete Datenanalysemethode und die Anzahl von Angreifern bezieht. Für den Zweck eines vertraulichkeitsbewahrenden, verteilten Data-Clustering wird ein neues Kernel-Dichteabschätzungsbasiertes Verfahren namens KDECS vorgestellt. KDECS verwendet eine Approximation der originalen, lokalen Kernel-Dichteschätzung, so dass die ursprünglichen Daten anderer Agenten in der Data Mining-Gruppe mit einer höheren Wahrscheinlichkeit als einem hierfür vorgegebenen Wert nicht mehr zu rekonstruieren sind. Das Verfahren ist nachweislich sicherer als Data-Clustering mit generativen Mixture Modellen und SMC-basiert sicherem k-means Data-Clustering. Zusätzlich stellen wir neue Verfahren, namens DPD-TS, DPD-HE und DPDFS, für eine vertraulichkeitsbewahrende, verteilte Mustererkennung in Zeitreihen vor, deren Komplexität und Sicherheitsgrad wir mit den zuvor erwähnten neuen Privacy-Maßen analysieren. Dabei hängt ein von einzelnen Agenten einer Data Mining-Gruppe jeweils vorgegebener, minimaler Sicherheitsgrad von DPD-TS und DPD-FS nur von der Dimensionsreduktion der Zeitreihenwerte und ihrer Diskretisierung ab und kann leicht überprüft werden. Einen noch besseren Schutz von sensiblen Daten bietet das Verfahren DPD HE mit Hilfe von homomorpher Verschlüsselung. Neben der theoretischen Analyse wurden die experimentellen Leistungsbewertungen der entwickelten Verfahren mit verschiedenen, öffentlich verfügbaren Datensätzen durchgeführt

Anomaly detection and explanation in big data

2021 Spring.Includes bibliographical references.Data quality tests are used to validate the data stored in databases and data warehouses, and to detect violations of syntactic and semantic constraints. Domain experts grapple with the issues related to the capturing of all the important constraints and checking that they are satisfied. The constraints are often identified in an ad hoc manner based on the knowledge of the application domain and the needs of the stakeholders. Constraints can exist over single or multiple attributes as well as records involving time series and sequences. The constraints involving multiple attributes can involve both linear and non-linear relationships among the attributes. We propose ADQuaTe as a data quality test framework that automatically (1) discovers different types of constraints from the data, (2) marks records that violate the constraints as suspicious, and (3) explains the violations. Domain knowledge is required to determine whether or not the suspicious records are actually faulty. The framework can incorporate feedback from domain experts to improve the accuracy of constraint discovery and anomaly detection. We instantiate ADQuaTe in two ways to detect anomalies in non-sequence and sequence data. The first instantiation (ADQuaTe2) uses an unsupervised approach called autoencoder for constraint discovery in non-sequence data. ADQuaTe2 is based on analyzing records in isolation to discover constraints among the attributes. We evaluate the effectiveness of ADQuaTe2 using real-world non-sequence datasets from the human health and plant diagnosis domains. We demonstrate that ADQuaTe2 can discover new constraints that were previously unspecified in existing data quality tests, and can report both previously detected and new faults in the data. We also use non-sequence datasets from the UCI repository to evaluate the improvement in the accuracy of ADQuaTe2 after incorporating ground truth knowledge and retraining the autoencoder model. The second instantiation (IDEAL) uses an unsupervised LSTM-autoencoder for constraint discovery in sequence data. IDEAL analyzes the correlations and dependencies among data records to discover constraints. We evaluate the effectiveness of IDEAL using datasets from Yahoo servers, NASA Shuttle, and Colorado State University Energy Institute. We demonstrate that IDEAL can detect previously known anomalies from these datasets. Using mutation analysis, we show that IDEAL can detect different types of injected faults. We also demonstrate that the accuracy of the approach improves after incorporating ground truth knowledge about the injected faults and retraining the LSTM-Autoencoder model. The novelty of this research lies in the development of a domain-independent framework that effectively and efficiently discovers different types of constraints from the data, detects and explains anomalous data, and minimizes false alarms through an interactive learning process

Advances in knowledge discovery and data mining Part II

19th Pacific-Asia Conference, PAKDD 2015, Ho Chi Minh City, Vietnam, May 19-22, 2015, Proceedings, Part II</p

Novelty Detection And Cluster Analysis In Time Series Data Using Variational Autoencoder Feature Maps

The identification of atypical events and anomalies in complex data systems is an essential yet challenging task. The dynamic nature of these systems produces huge volumes of data that is often heterogeneous, and the failure to account for this will impede the detection of anomalies. Time series data encompass these issues and its high dimensional nature intensifies these challenges. This research presents a framework for the identification of anomalies in temporal data. A comparative analysis of Centroid, Density and Neural Network-based clustering techniques was performed and their scalability was assessed. This facilitated the development of a new algorithm called the Variational Autoencoder Feature Map (VAEFM) which is an ensemble method that is based on Kohonen’s Self-Organizing Maps (SOM) and Variational Autoencoders. The VAEFM is an unsupervised learning algorithm that models the distribution of temporal data without making a priori assumptions. It incorporates principles of novelty detection to enhance the representational capacity of SOMs neurons, which improves their ability to generalize with novel data. The VAEFM technique was demonstrated on a dataset of accumulated aircraft sensor recordings, to detect atypical events that transpired in the approach phase of flight. This is a proactive means of accident prevention and is therefore advantageous to the Aviation industry. Furthermore, accumulated aircraft data presents big data challenges, which requires scalable analytical solutions. The results indicated that VAEFM successfully identified temporal dependencies in the flight data and produced several clusters and outliers. It analyzed over 2500 flights in under 5 minutes and identified 12 clusters, two of which contained stabilized approaches. The remaining comprised of aborted approaches, excessively high/fast descent patterns and other contributory factors for unstabilized approaches. Outliers were detected which revealed oscillations in aircraft trajectories; some of which would have a lower detection rate using traditional flight safety analytical techniques. The results further indicated that VAEFM facilitates large-scale analysis and its scaling efficiency was demonstrated on a High Performance Computing System, by using an increased number of processors, where it achieved an average speedup of 70%

Parallel Methods for Mining Frequent Sequential patterns

The explosive growth of data and the rapid progress of technology have led to a huge amount of data that is collected every day. In that data volume contains much valuable information. Data mining is the emerging field of applying statistical and artificial intelligence techniques to the problem of finding novel, useful and non-trivial patterns from large databases. It is the task of discovering interesting patterns from large amounts of data. This is achieved by determining both implicit and explicit unidentified patterns in data that can direct the process of decision making. There are many data mining tasks, such as classification, clustering, association rule mining and sequential pattern mining. In that, sequential pattern mining is an important problem in data mining. It provides an effective way to analyze the sequence data. The goal of sequential pattern mining is to discover interesting, unexpected and useful patterns from sequence databases. This task is used in many wide applications such as financial data analysis of banks, retail industry, customer shopping history, goods transportation, consumption and services, telecommunication industry, biological data analysis, scientific applications, network intrusion detection, scientific research, etc. Different types of sequential pattern mining can be performed, they are sequential patterns, maximal sequential patterns, closed sequences, constraint based and time interval based sequential patterns. Sequential pattern mining refers to the identification of frequent subsequences in sequence databases as patterns. In the last two decades, researchers have proposed many techniques and algorithms for extracting the frequent sequential patterns, in which the downward closure property plays a fundamental role. Sequential pattern is a sequence of itemsets that frequently occur in a specific order, where all items in the same itemsets are supposed to have the same transaction time value. One of the challenges for sequential pattern mining is the computational costs beside that is the potentially huge number of extracted patterns. In this thesis, we present an overview of the work done for sequential pattern mining and develop parallel methods for mining frequent sequential patterns in sequence databases that can tackle emerging data processing workloads while coping with larger and larger scales.The explosive growth of data and the rapid progress of technology have led to a huge amount of data that is collected every day. In that data volume contains much valuable information. Data mining is the emerging field of applying statistical and artificial intelligence techniques to the problem of finding novel, useful and non-trivial patterns from large databases. It is the task of discovering interesting patterns from large amounts of data. This is achieved by determining both implicit and explicit unidentified patterns in data that can direct the process of decision making. There are many data mining tasks, such as classification, clustering, association rule mining and sequential pattern mining. In that, sequential pattern mining is an important problem in data mining. It provides an effective way to analyze the sequence data. The goal of sequential pattern mining is to discover interesting, unexpected and useful patterns from sequence databases. This task is used in many wide applications such as financial data analysis of banks, retail industry, customer shopping history, goods transportation, consumption and services, telecommunication industry, biological data analysis, scientific applications, network intrusion detection, scientific research, etc. Different types of sequential pattern mining can be performed, they are sequential patterns, maximal sequential patterns, closed sequences, constraint based and time interval based sequential patterns. Sequential pattern mining refers to the identification of frequent subsequences in sequence databases as patterns. In the last two decades, researchers have proposed many techniques and algorithms for extracting the frequent sequential patterns, in which the downward closure property plays a fundamental role. Sequential pattern is a sequence of itemsets that frequently occur in a specific order, where all items in the same itemsets are supposed to have the same transaction time value. One of the challenges for sequential pattern mining is the computational costs beside that is the potentially huge number of extracted patterns. In this thesis, we present an overview of the work done for sequential pattern mining and develop parallel methods for mining frequent sequential patterns in sequence databases that can tackle emerging data processing workloads while coping with larger and larger scales.460 - Katedra informatikyvyhově

Técnicas avanzadas de predicción para big data en el contexto de smart cities

Programa de Doctorado en Biotecnología, Ingeniería y Tecnología QuímicaLínea de Investigación: Ingeniería InformáticaClave Programa: DBICódigo Línea: 19Cada día se recoge más y más información de cualquier ámbito de nuestra vida. Número de pasos por minuto, contaminación en las principales ciudades del mundo o el consumo eléctrico medido cada cierto tiempo son sólo algunos ejemplos. Es en este ámbito donde surgen las Smart Cities, o ciudades conectadas, donde se recaba toda la información posible de diferentes dispositivos IoT repartidos por la misma con la esperanza de descubrir conocimiento en dichos datos e, incluso, predecir ciertos comportamientos futuros. Pero estas nuevas series temporales que se están creando comienzan a exceder los tamaños hasta ahora tenidos en cuenta, empezando a considerarse por tanto Big Data. Las técnicas de machine learning y minería de datos que hasta ahora ofrecían buenos resultados, no podían gestionar tal cantidad de información. Es por ello que necesitaban ser revisadas. Así, surge este trabajo de investigación, donde se propone un algoritmo de predicción basado en vecinos cercanos, para predecir series temporales Big Data. Para ello, apoyándose en nuevos frameworks de análisis de datos como Apache Spark con la computación distribuida como bandera, se proponen dos algoritmos: uno basado en el kWNN para análisis y predicción de series temporales univariante y el MV-kWNN en su versión multivariante. Se detalla en este trabajo los pasos realizados para adaptarlo a la computación distribuida y los resultados obtenidos tras llevar a cabo la predicción sobre los datos de consumo eléctrico de 3 edificios de una universidad pública. Se muestra, así mismo, las mejoras introducidas al algoritmo para seleccionar de forma óptima los parámetros requeridos por el mismo, estos son: el número de valores pasados que hay que usar (w) para predecir los h valores siguientes y el número de vecinos cercanos k a considerar para la predicción. También se valoran diferentes tamaños de horizontes de predicción h como dato de entrada al algoritmo. Se comprueba la validez de dichas mejoras realizando la predicción sobre una serie temporal el doble de grande que la considerada en primer término, en este caso la demanda eléctrica en España recogida durante 9 años. Las baja tasa de error obtenida demuestra la idoneidad del algoritmo, y su comparación con otros métodos como deep learning o árboles de regresión, así lo reafirman. Distintas pruebas sobre la escalabilidad del algoritmo en un clúster con diferentes configuraciones muestran lo importante que es escoger adecuadamente parámetros como el número de cores a utilizar por máquina, el número de particiones en que dividir el conjunto de datos así como el número de máquinas en un clúster. Para finalizar, se propone un nuevo algoritmo para tener en cuenta no sólo una variable, sino varias series exógenas que pudieran mejorar la predicción final. Llevando a cabo diferentes análisis basados en correlación, se define el grado mínimo que deben cumplir las series para mejorar dicha predicción. Experimentaciones sobre dos series reales, de demanda eléctrica en España y del precio de la electricidad durante el mismo periodo, son llevadas a cabo, alcanzando de nuevo bajas tasas de error. La comparación con otros métodos multivariantes, como los de redes neuronales o random forests, sitúan al método propuesto en el primer lugar por delante de estos. Una última experimentación para confirmar la adecuación del algoritmo a series temporales Big Data es realizada, mostrando los tiempos de ejecución multiplicando hasta por 200 el tamaño original de las series.Universidad Pablo de Olavide de Sevilla. Departamento de Deporte e InformáticaPostprin