Download or read book Integrative Machine Learning and Network Mining Models for the Inference of Regulatory Elements and Interactions in Human Cells written by Asa Thibodeau and published by . This book was released on 2018 with total page 86 pages. Available in PDF, EPUB and Kindle. Book excerpt: With the increase in diverse genome profiling technologies and publicly available ontology databases ranging from open chromatin profiles to the 3D structure of the genome, it is imperative to build novel computational methods that take full advantage of these diverse datasets to uncover the regulatory mechanisms behind cellular functions. Integrating these datasets offers the opportunity to identify regulatory elements (id est, promoter, enhancers, et cetera) and interactions critical for cell-type-specific functions. Here, the goal's two fold: 1) inference of regulatory interactions and networks from 3D chromatin interaction datasets and 2) inference of cell-specific and non-specific regulatory elements such as enhancers (regulatory elements that target gene promoters and regulate their expression). To address the first goal, two software tools were developed: (1) a web-accessible application: Querying and visualizing chromatin Interaction Network (QuIN) and (2) a pathway analysis prioritization tool: Triangulation of Perturbation Origins and Identification of Non-Coding Targets (TriPOINT). QuIN enables users to easily mine chromatin interaction datasets and integrate them with other sources such as SNPs and epigenetic marks to ultimately build networks to query and visualize them in downstream analyses and to prioritize genomic loci (id est, disease-causing variants). Similarly, TriPOINT uses pathways in conjunction with chromatin interaction networks to identify perturbed genes in treatment vs. control cases, implementing pathway topology based approaches for identifying inconsistencies in pathways and incorporating the capabilities of QuIN to integrate non-coding regulators targeting genes in these pathways through chromatin interaction data. The second goal was achieved using two approaches. First, features obtained from network mining were trained on support vector machines to assess the predictive power in identifying cell-type-specific promoters (broad domains) and enhancers (super enhancers) from chromatin interaction networks. Network signatures were mined in three cell lines (MCF-7, K562, and GM12878) using QuIN across multiple chromatin interaction assays (ChIA-PET, Hi-C, and HiChIP) and it was discovered that network related features could effectively discriminate typical promoters and enhancers from cell-type-specific ones. Second, features from Assay for Transposase Accessible Chromatin (ATAC-seq) were profiled to identify enhancers from accessible chromatin in neural network models. Models were highly predictive of enhancers; useful for individual specific and clinical sample settings.

Download or read book Machine Learning Methods for Multi Omics Data Integration written by Abedalrhman Alkhateeb and published by Springer Nature. This book was released on 2023-12-15 with total page 171 pages. Available in PDF, EPUB and Kindle. Book excerpt: The advancement of biomedical engineering has enabled the generation of multi-omics data by developing high-throughput technologies, such as next-generation sequencing, mass spectrometry, and microarrays. Large-scale data sets for multiple omics platforms, including genomics, transcriptomics, proteomics, and metabolomics, have become more accessible and cost-effective over time. Integrating multi-omics data has become increasingly important in many research fields, such as bioinformatics, genomics, and systems biology. This integration allows researchers to understand complex interactions between biological molecules and pathways. It enables us to comprehensively understand complex biological systems, leading to new insights into disease mechanisms, drug discovery, and personalized medicine. Still, integrating various heterogeneous data types into a single learning model also comes with challenges. In this regard, learning algorithms have been vital in analyzing and integrating these large-scale heterogeneous data sets into one learning model. This book overviews the latest multi-omics technologies, machine learning techniques for data integration, and multi-omics databases for validation. It covers different types of learning for supervised and unsupervised learning techniques, including standard classifiers, deep learning, tensor factorization, ensemble learning, and clustering, among others. The book categorizes different levels of integrations, ranging from early, middle, or late-stage among multi-view models. The underlying models target different objectives, such as knowledge discovery, pattern recognition, disease-related biomarkers, and validation tools for multi-omics data. Finally, the book emphasizes practical applications and case studies, making it an essential resource for researchers and practitioners looking to apply machine learning to their multi-omics data sets. The book covers data preprocessing, feature selection, and model evaluation, providing readers with a practical guide to implementing machine learning techniques on various multi-omics data sets.

Download or read book Towards Integrative Machine Learning and Knowledge Extraction written by Andreas Holzinger and published by Springer. This book was released on 2017-10-27 with total page 220 pages. Available in PDF, EPUB and Kindle. Book excerpt: The BIRS Workshop “Advances in Interactive Knowledge Discovery and Data Mining in Complex and Big Data Sets” (15w2181), held in July 2015 in Banff, Canada, was dedicated to stimulating a cross-domain integrative machine-learning approach and appraisal of “hot topics” toward tackling the grand challenge of reaching a level of useful and useable computational intelligence with a focus on real-world problems, such as in the health domain. This encompasses learning from prior data, extracting and discovering knowledge, generalizing the results, fighting the curse of dimensionality, and ultimately disentangling the underlying explanatory factors in complex data, i.e., to make sense of data within the context of the application domain. The workshop aimed to contribute advancements in promising novel areas such as at the intersection of machine learning and topological data analysis. History has shown that most often the overlapping areas at intersections of seemingly disparate fields are key for the stimulation of new insights and further advances. This is particularly true for the extremely broad field of machine learning.

Download or read book Gene Network Inference written by Alberto Fuente and published by Springer Science & Business Media. This book was released on 2014-01-03 with total page 135 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents recent methods for Systems Genetics (SG) data analysis, applying them to a suite of simulated SG benchmark datasets. Each of the chapter authors received the same datasets to evaluate the performance of their method to better understand which algorithms are most useful for obtaining reliable models from SG datasets. The knowledge gained from this benchmarking study will ultimately allow these algorithms to be used with confidence for SG studies e.g. of complex human diseases or food crop improvement. The book is primarily intended for researchers with a background in the life sciences, not for computer scientists or statisticians.

Download or read book Machine Learning Methodologies To Study Molecular Interactions written by Elif Ozkirimli and published by Frontiers Media SA. This book was released on 2022-01-21 with total page 147 pages. Available in PDF, EPUB and Kindle. Book excerpt: Dr. Elif Ozkirimli is a full time employee of F. Hoffmann-La Roche AG, Switzerland and Dr. Artur Yakimovich is a full time employee of Roche Products Limited, UK. All other Topic Editors declare no competing interests with regards to the Research Topic.

Download or read book Fusion of Machine Learning Paradigms written by Ioannis K. Hatzilygeroudis and published by Springer Nature. This book was released on 2023-02-06 with total page 204 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book aims at updating the relevant computer science-related research communities, including professors, researchers, scientists, engineers and students, as well as the general reader from other disciplines, on the most recent advances in applications of methods based on Fusing Machine Learning Paradigms. Integrated or Hybrid Machine Learning methodologies combine together two or more Machine Learning approaches achieving higher performance and better efficiency when compared to those of their constituent components and promising major impact in science, technology and the society. The book consists of an editorial note and an additional eight chapters and is organized into two parts, namely: (i) Recent Application Areas of Fusion of Machine Learning Paradigms and (ii) Applications that can clearly benefit from Fusion of Machine Learning Paradigms. This book is directed toward professors, researchers, scientists, engineers and students in Machine Learning-related disciplines, as the hybridism presented, and the case studies described provide researchers with successful approaches and initiatives to efficiently address complex classification or regression problems. It is also directed toward readers who come from other disciplines, including Engineering, Medicine or Education Sciences, and are interested in becoming versed in some of the most recent Machine Learning-based technologies. Extensive lists of bibliographic references at the end of each chapter guide the readers to probe further into the application areas of interest to them.

Download or read book Engineering Dependable and Secure Machine Learning Systems written by Onn Shehory and published by Springer Nature. This book was released on 2020-11-07 with total page 150 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the revised selected papers of the Third International Workshop on Engineering Dependable and Secure Machine Learning Systems, EDSMLS 2020, held in New York City, NY, USA, in February 2020. The 7 full papers and 3 short papers were thoroughly reviewed and selected from 16 submissions. The volume presents original research on dependability and quality assurance of ML software systems, adversarial attacks on ML software systems, adversarial ML and software engineering, etc.

Download or read book Drosophila Eye Development written by Kevin Moses and published by Springer Science & Business Media. This book was released on 2002-03-12 with total page 296 pages. Available in PDF, EPUB and Kindle. Book excerpt: 1 Kevin Moses It is now 25 years since the study of the development of the compound eye in Drosophila really began with a classic paper (Ready et al. 1976). In 1864, August Weismann published a monograph on the development of Diptera and included some beautiful drawings of the developing imaginal discs (Weismann 1864). One of these is the first description of the third instar eye disc in which Weismann drew a vertical line separating a posterior domain that included a regular pattern of clustered cells from an anterior domain without such a pattern. Weismann suggested that these clusters were the precursors of the adult ommatidia and that the line marks the anterior edge of the eye. In his first suggestion he was absolutely correct - in his second he was wrong. The vertical line shown was not the anterior edge of the eye, but the anterior edge of a moving wave of patterning and cell type specification that 112 years later (1976) Ready, Hansen and Benzer would name the "morphogenetic furrow". While it is too late to hear from August Weismann, it is a particular pleasure to be able to include a chapter in this Volume from the first author of that 1976 paper: Don Ready! These past 25 years have seen an astonishing explosion in the study of the fly eye (see Fig.

Download or read book Advances in Hybridization of Intelligent Methods written by Ioannis Hatzilygeroudis and published by Springer. This book was released on 2017-10-13 with total page 155 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents recent research on the hybridization of intelligent methods, which refers to combining methods to solve complex problems. It discusses hybrid approaches covering different areas of intelligent methods and technologies, such as neural networks, swarm intelligence, machine learning, reinforcement learning, deep learning, agent-based approaches, knowledge-based system and image processing. The book includes extended and revised versions of invited papers presented at the 6th International Workshop on Combinations of Intelligent Methods and Applications (CIMA 2016), held in The Hague, Holland, in August 2016. The book is intended for researchers and practitioners from academia and industry interested in using hybrid methods for solving complex problems.

Download or read book Machine Learning and Knowledge Discovery in Databases Research Track written by Danai Koutra and published by Springer Nature. This book was released on 2023-09-16 with total page 802 pages. Available in PDF, EPUB and Kindle. Book excerpt: The multi-volume set LNAI 14169 until 14175 constitutes the refereed proceedings of the European Conference on Machine Learning and Knowledge Discovery in Databases, ECML PKDD 2023, which took place in Turin, Italy, in September 2023. The 196 papers were selected from the 829 submissions for the Research Track, and 58 papers were selected from the 239 submissions for the Applied Data Science Track. The volumes are organized in topical sections as follows: Part I: Active Learning; Adversarial Machine Learning; Anomaly Detection; Applications; Bayesian Methods; Causality; Clustering. Part II: ​Computer Vision; Deep Learning; Fairness; Federated Learning; Few-shot learning; Generative Models; Graph Contrastive Learning. Part III: ​Graph Neural Networks; Graphs; Interpretability; Knowledge Graphs; Large-scale Learning. Part IV: ​Natural Language Processing; Neuro/Symbolic Learning; Optimization; Recommender Systems; Reinforcement Learning; Representation Learning. Part V: ​Robustness; Time Series; Transfer and Multitask Learning. Part VI: ​Applied Machine Learning; Computational Social Sciences; Finance; Hardware and Systems; Healthcare & Bioinformatics; Human-Computer Interaction; Recommendation and Information Retrieval. ​Part VII: Sustainability, Climate, and Environment.- Transportation & Urban Planning.- Demo.

Download or read book Machine Learning and Deep Learning in Computational Toxicology written by Huixiao Hong and published by Springer Nature. This book was released on 2023-03-11 with total page 654 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book is a collection of machine learning and deep learning algorithms, methods, architectures, and software tools that have been developed and widely applied in predictive toxicology. It compiles a set of recent applications using state-of-the-art machine learning and deep learning techniques in analysis of a variety of toxicological endpoint data. The contents illustrate those machine learning and deep learning algorithms, methods, and software tools and summarise the applications of machine learning and deep learning in predictive toxicology with informative text, figures, and tables that are contributed by the first tier of experts. One of the major features is the case studies of applications of machine learning and deep learning in toxicological research that serve as examples for readers to learn how to apply machine learning and deep learning techniques in predictive toxicology. This book is expected to provide a reference for practical applications of machine learning and deep learning in toxicological research. It is a useful guide for toxicologists, chemists, drug discovery and development researchers, regulatory scientists, government reviewers, and graduate students. The main benefit for the readers is understanding the widely used machine learning and deep learning techniques and gaining practical procedures for applying machine learning and deep learning in predictive toxicology.

Download or read book An Integrated Machine Learning and Deep Learning Model for Predictive Analysis written by Karma Gyatso and published by Mohammed Abdul Sattar. This book was released on 2023-12-11 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Every year, there are more patients with chronic diseases, and they tend to be younger people as the speed of life hastens aging. This is both a big problem for society's health and a problem for your health. Chronic diseases will significantly impact patients' health and quality of life. The effects of some disorders are permanent and even incurable. This places a significant load on the communities and relatives of the patients. Every year, there are more people with chronic diseases, and many of them are younger because of how fast life is moving. This is a serious problem for both personal health and public health that harms society. Chronic diseases will have a substantial influence on patients' health and quality of life, and many chronic Some illnesses have long-lasting, even incurable, impacts. It will bring an enormous burden to the family and community of the patient. In recent years, there is considerable progress has been made in the treatment of illness, and this has had a big impact on the results for chronic diseases, including the monitoring of therapy and clinical diagnosis, amongst other things. The large amounts of obscure health data will be analyzed to extract previously unknown and useful information as well as predict future trends. Corporations are now overwhelmed by the amount of data contained in database systems, consisting of unstructured data such as pictures, video, and sensor data. To discover the data trends and prediction of the scopes, deep learning, and machine learning algorithms are utilized in this case, along with other optimization techniques. We employed a variety of machine learning algorithms for these strategies, including SVM, neural networks, and linear and nonlinear regression techniques. Then, prescriptive analytics may apply the knowledge gained from predictive analytics to prescribe actions based on predicted findings. Machine learning is a type of predictive analytics that helps enterprises move up the business intelligence maturity curve by expanding their usage of predictive analytics to include autonomous, forward-looking decision support instead of just descriptive analytics focusing on the past. Although the technology has been there for a while, many businesses are now taking a fresh look at it due to the excitement surrounding new methods and goods. Machine learning-based analytical solutions frequently function in real-time, giving business a new dimension. Real-time analytics provides information to staff "on the front lines" to improve performance hour-by-hour. However, older models will still provide important reports and analyses to senior decision-makers. Machine learning, a branch of artificial intelligence, train machines to use certain algorithms to analyse, learn from, and provide predictions and recommendations from massive volumes of data. Without human interaction, predictive models may adjust to new data and learn from past iterations to make decisions and outcomes that are ever more consistent and trustworthy.

Download or read book Machine Learning and Principles and Practice of Knowledge Discovery in Databases written by Irena Koprinska and published by Springer Nature. This book was released on 2023-01-30 with total page 646 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume constitutes the papers of several workshops which were held in conjunction with the International Workshops of ECML PKDD 2022 on Machine Learning and Principles and Practice of Knowledge Discovery in Databases, ECML PKDD 2022, held in Grenoble, France, during September 19–23, 2022. The 73 revised full papers and 6 short papers presented in this book were carefully reviewed and selected from 143 submissions. ECML PKDD 2022 presents the following workshops: Workshop on Data Science for Social Good (SoGood 2022) Workshop on New Frontiers in Mining Complex Patterns (NFMCP 2022) Workshop on Explainable Knowledge Discovery in Data Mining (XKDD 2022) Workshop on Uplift Modeling (UMOD 2022) Workshop on IoT, Edge and Mobile for Embedded Machine Learning (ITEM 2022) Workshop on Mining Data for Financial Application (MIDAS 2022) Workshop on Machine Learning for Cybersecurity (MLCS 2022) Workshop on Machine Learning for Buildings Energy Management (MLBEM 2022) Workshop on Machine Learning for Pharma and Healthcare Applications (PharML 2022) Workshop on Data Analysis in Life Science (DALS 2022) Workshop on IoT Streams for Predictive Maintenance (IoT-PdM 2022)

Download or read book Machine Learning and Knowledge Discovery for Engineering Systems Health Management written by Ashok N. Srivastava and published by CRC Press. This book was released on 2016-04-19 with total page 505 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume presents state-of-the-art tools and techniques for automatically detecting, diagnosing, and predicting the effects of adverse events in an engineered system. It emphasizes the importance of these techniques in managing the intricate interactions within and between engineering systems to maintain a high degree of reliability. Reflecting the interdisciplinary nature of the field, the book explains how the fundamental algorithms and methods of both physics-based and data-driven approaches effectively address systems health management in application areas such as data centers, aircraft, and software systems.

Download or read book Systems Genetics written by Florian Markowetz and published by Cambridge University Press. This book was released on 2015-07-02 with total page 287 pages. Available in PDF, EPUB and Kindle. Book excerpt: Whereas genetic studies have traditionally focused on explaining heritance of single traits and their phenotypes, recent technological advances have made it possible to comprehensively dissect the genetic architecture of complex traits and quantify how genes interact to shape phenotypes. This exciting new area has been termed systems genetics and is born out of a synthesis of multiple fields, integrating a range of approaches and exploiting our increased ability to obtain quantitative and detailed measurements on a broad spectrum of phenotypes. Gathering the contributions of leading scientists, both computational and experimental, this book shows how experimental perturbations can help us to understand the link between genotype and phenotype. A snapshot of current research activity and state-of-the-art approaches to systems genetics are provided, including work from model organisms such as Saccharomyces cerevisiae and Drosophila melanogaster, as well as from human studies.

Download or read book Machine Learning Methods for the Discovery of Regulatory Elements in Bacertia written by Joseph Bockhorst and published by . This book was released on 2005 with total page 206 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book Artificial Intelligence in Healthcare written by Adam Bohr and published by Academic Press. This book was released on 2020-06-21 with total page 385 pages. Available in PDF, EPUB and Kindle. Book excerpt: Artificial Intelligence (AI) in Healthcare is more than a comprehensive introduction to artificial intelligence as a tool in the generation and analysis of healthcare data. The book is split into two sections where the first section describes the current healthcare challenges and the rise of AI in this arena. The ten following chapters are written by specialists in each area, covering the whole healthcare ecosystem. First, the AI applications in drug design and drug development are presented followed by its applications in the field of cancer diagnostics, treatment and medical imaging. Subsequently, the application of AI in medical devices and surgery are covered as well as remote patient monitoring. Finally, the book dives into the topics of security, privacy, information sharing, health insurances and legal aspects of AI in healthcare. Highlights different data techniques in healthcare data analysis, including machine learning and data mining Illustrates different applications and challenges across the design, implementation and management of intelligent systems and healthcare data networks Includes applications and case studies across all areas of AI in healthcare data