Machine Learning and Integrative Analysis of Biomedical Big Data.

Recent developments in high-throughput technologies have accelerated the accumulation of massive amounts of omics data from multiple sources: genome, epigenome, transcriptome, proteome, metabolome, etc. Traditionally, data from each source (e.g., genome) is analyzed in isolation using statistical and machine learning (ML) methods. Integrative analysis of multi-omics and clinical data is key to new biomedical discoveries and advancements in precision medicine. However, data integration poses new computational challenges as well as exacerbates the ones associated with single-omics studies. Specialized computational approaches are required to effectively and efficiently perform integrative analysis of biomedical data acquired from diverse modalities. In this review, we discuss state-of-the-art ML-based approaches for tackling five specific computational challenges associated with integrative analysis: curse of dimensionality, data heterogeneity, missing data, class imbalance and scalability issues

IoT Data Analytics in Dynamic Environments: From An Automated Machine Learning Perspective

With the wide spread of sensors and smart devices in recent years, the data generation speed of the Internet of Things (IoT) systems has increased dramatically. In IoT systems, massive volumes of data must be processed, transformed, and analyzed on a frequent basis to enable various IoT services and functionalities. Machine Learning (ML) approaches have shown their capacity for IoT data analytics. However, applying ML models to IoT data analytics tasks still faces many difficulties and challenges, specifically, effective model selection, design/tuning, and updating, which have brought massive demand for experienced data scientists. Additionally, the dynamic nature of IoT data may introduce concept drift issues, causing model performance degradation. To reduce human efforts, Automated Machine Learning (AutoML) has become a popular field that aims to automatically select, construct, tune, and update machine learning models to achieve the best performance on specified tasks. In this paper, we conduct a review of existing methods in the model selection, tuning, and updating procedures in the area of AutoML in order to identify and summarize the optimal solutions for every step of applying ML algorithms to IoT data analytics. To justify our findings and help industrial users and researchers better implement AutoML approaches, a case study of applying AutoML to IoT anomaly detection problems is conducted in this work. Lastly, we discuss and classify the challenges and research directions for this domain.Comment: Published in Engineering Applications of Artificial Intelligence (Elsevier, IF:7.8); Code/An AutoML tutorial is available at Github link: https://github.com/Western-OC2-Lab/AutoML-Implementation-for-Static-and-Dynamic-Data-Analytic

Online learning and fusion of orientation appearance models for robust rigid object tracking

We introduce a robust framework for learning and fusing of orientation appearance models based on both texture and depth information for rigid object tracking. Our framework fuses data obtained from a standard visual camera and dense depth maps obtained by low-cost consumer depth cameras such as the Kinect. To combine these two completely different modalities, we propose to use features that do not depend on the data representation: angles. More specifically, our framework combines image gradient orientations as extracted from intensity images with the directions of surface normals computed from dense depth fields. We propose to capture the correlations between the obtained orientation appearance models using a fusion approach motivated by the original Active Appearance Models (AAMs). To incorporate these features in a learning framework, we use a robust kernel based on the Euler representation of angles which does not require off-line training, and can be efficiently implemented online. The robustness of learning from orientation appearance models is presented both theoretically and experimentally in this work. This kernel enables us to cope with gross measurement errors, missing data as well as other typical problems such as illumination changes and occlusions. By combining the proposed models with a particle filter, the proposed framework was used for performing 2D plus 3D rigid object tracking, achieving robust performance in very difficult tracking scenarios including extreme pose variations. © 2014 Elsevier B.V. All rights reserved

Precision-Energy-Throughput Scaling Of Generic Matrix Multiplication and Convolution Kernels Via Linear Projections

Generic matrix multiplication (GEMM) and one-dimensional convolution/cross-correlation (CONV) kernels often constitute the bulk of the compute- and memory-intensive processing within image/audio recognition and matching systems. We propose a novel method to scale the energy and processing throughput of GEMM and CONV kernels for such error-tolerant multimedia applications by adjusting the precision of computation. Our technique employs linear projections to the input matrix or signal data during the top-level GEMM and CONV blocking and reordering. The GEMM and CONV kernel processing then uses the projected inputs and the results are accumulated to form the final outputs. Throughput and energy scaling takes place by changing the number of projections computed by each kernel, which in turn produces approximate results, i.e. changes the precision of the performed computation. Results derived from a voltage- and frequency-scaled ARM Cortex A15 processor running face recognition and music matching algorithms demonstrate that the proposed approach allows for 280%~440% increase of processing throughput and 75%~80% decrease of energy consumption against optimized GEMM and CONV kernels without any impact in the obtained recognition or matching accuracy. Even higher gains can be obtained if one is willing to tolerate some reduction in the accuracy of the recognition and matching applications