2,495 research outputs found
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
Automated Segmentation of Cerebral Aneurysm Using a Novel Statistical Multiresolution Approach
Cerebral Aneurysm (CA) is a vascular disease that threatens the lives of
many adults. It a ects almost 1:5 - 5% of the general population. Sub-
Arachnoid Hemorrhage (SAH), resulted by a ruptured CA, has high rates of
morbidity and mortality. Therefore, radiologists aim to detect it and diagnose
it at an early stage, by analyzing the medical images, to prevent or reduce its
damages.
The analysis process is traditionally done manually. However, with the
emerging of the technology, Computer-Aided Diagnosis (CAD) algorithms are
adopted in the clinics to overcome the traditional process disadvantages, as
the dependency of the radiologist's experience, the inter and intra observation
variability, the increase in the probability of error which increases consequently
with the growing number of medical images to be analyzed, and the artifacts
added by the medical images' acquisition methods (i.e., MRA, CTA, PET, RA,
etc.) which impedes the radiologist' s work.
Due to the aforementioned reasons, many research works propose di erent
segmentation approaches to automate the analysis process of detecting a CA
using complementary segmentation techniques; but due to the challenging task
of developing a robust reproducible reliable algorithm to detect CA regardless
of its shape, size, and location from a variety of the acquisition methods, a
diversity of proposed and developed approaches exist which still su er from
some limitations.
This thesis aims to contribute in this research area by adopting two promising
techniques based on the multiresolution and statistical approaches in the
Two-Dimensional (2D) domain. The rst technique is the Contourlet Transform
(CT), which empowers the segmentation by extracting features not apparent
in the normal image scale. While the second technique is the Hidden
Markov Random Field model with Expectation Maximization (HMRF-EM),
which segments the image based on the relationship of the neighboring pixels
in the contourlet domain.
The developed algorithm reveals promising results on the four tested Three-
Dimensional Rotational Angiography (3D RA) datasets, where an objective
and a subjective evaluation are carried out. For the objective evaluation, six
performance metrics are adopted which are: accuracy, Dice Similarity Index
(DSI), False Positive Ratio (FPR), False Negative Ratio (FNR), speci city,
and sensitivity. As for the subjective evaluation, one expert and four observers
with some medical background are involved to assess the segmentation visually.
Both evaluations compare the segmented volumes against the ground
truth data
CES-513 Stages for Developing Control Systems using EMG and EEG Signals: A survey
Bio-signals such as EMG (Electromyography), EEG (Electroencephalography), EOG (Electrooculogram), ECG (Electrocardiogram) have been deployed recently to develop control systems for improving the quality of life of disabled and elderly people. This technical report aims to review the current deployment of these state of the art control systems and explain some challenge issues. In particular, the stages for developing EMG and EEG based control systems are categorized, namely data acquisition, data segmentation, feature extraction, classification, and controller. Some related Bio-control applications are outlined. Finally a brief conclusion is summarized.
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Building trajectories through clinical data to model disease progression
This thesis was submitted for the degree of Doctor of Philosophy and awarded by Brunel University.Clinical trials are typically conducted over a population within a defined time period
in order to illuminate certain characteristics of a health issue or disease process. These cross-sectional studies provide a snapshot of these disease processes over a large number of people but do not allow us to model the temporal nature of disease, which is essential for modeling detailed prognostic predictions. Longitudinal studies, on the other hand, are used to explore how these processes develop over time in a number of people but can be expensive and time-consuming, and many studies only cover a relatively small window within the disease process. This thesis describes the application of intelligent data analysis techniques for extracting information from time series generated by different diseases. The aim of this thesis is to identify intermediate stages
in a disease process and sub-categories of the disease exhibiting subtly different symptoms. It explores the use of a bootstrap technique that fits trajectories through the data generating āpseudo time-seriesā. It addresses issues including: how clinical variables interact as a disease progresses along the trajectories in the data; and how to automatically identify different disease states along these trajectories, as well as the transitions between them. The thesis documents how reliable time-series models can be created from large amounts of historical cross-sectional data and a novel relabling/latent variable approach has enabled the exploration of the temporal nature of disease progression. The proposed algorithms are tested extensively on simulated data and on three real clinical datasets. Finally, a study is carried out to explore whether we can ācalibrateā pseudo time-series models with real longitudinal data in order to improve them. Plausible directions for future research are discussed at the end of the thesis
A brief network analysis of Artificial Intelligence publication
In this paper, we present an illustration to the history of Artificial
Intelligence(AI) with a statistical analysis of publish since 1940. We
collected and mined through the IEEE publish data base to analysis the
geological and chronological variance of the activeness of research in AI. The
connections between different institutes are showed. The result shows that the
leading community of AI research are mainly in the USA, China, the Europe and
Japan. The key institutes, authors and the research hotspots are revealed. It
is found that the research institutes in the fields like Data Mining, Computer
Vision, Pattern Recognition and some other fields of Machine Learning are quite
consistent, implying a strong interaction between the community of each field.
It is also showed that the research of Electronic Engineering and Industrial or
Commercial applications are very active in California. Japan is also publishing
a lot of papers in robotics. Due to the limitation of data source, the result
might be overly influenced by the number of published articles, which is to our
best improved by applying network keynode analysis on the research community
instead of merely count the number of publish.Comment: 18 pages, 7 figure
Application of artificial intelligence techniques for automated detection of myocardial infarction: A review
Myocardial infarction (MI) results in heart muscle injury due to receiving
insufficient blood flow. MI is the most common cause of mortality in
middle-aged and elderly individuals around the world. To diagnose MI,
clinicians need to interpret electrocardiography (ECG) signals, which requires
expertise and is subject to observer bias. Artificial intelligence-based
methods can be utilized to screen for or diagnose MI automatically using ECG
signals. In this work, we conducted a comprehensive assessment of artificial
intelligence-based approaches for MI detection based on ECG as well as other
biophysical signals, including machine learning (ML) and deep learning (DL)
models. The performance of traditional ML methods relies on handcrafted
features and manual selection of ECG signals, whereas DL models can automate
these tasks. The review observed that deep convolutional neural networks
(DCNNs) yielded excellent classification performance for MI diagnosis, which
explains why they have become prevalent in recent years. To our knowledge, this
is the first comprehensive survey of artificial intelligence techniques
employed for MI diagnosis using ECG and other biophysical signals.Comment: 16 pages, 8 figure
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