Graph-based Machine Learning and Its Application on Multi-omics Data Analysis PDF Download

Author: Han Zhang
Publisher:
ISBN:
Category :
Languages : en
Pages : 0

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Author: Abedalrhman Alkhateeb
Publisher: Springer Nature
ISBN: 303136502X
Category : Science
Languages : en
Pages : 171

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Book Description
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.

Author: Sanjiban Sekhar Roy
Publisher: Springer Nature
ISBN: 9811691584
Category : Technology & Engineering
Languages : en
Pages : 222

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Book Description
Currently, machine learning is playing a pivotal role in the progress of genomics. The applications of machine learning are helping all to understand the emerging trends and the future scope of genomics. This book provides comprehensive coverage of machine learning applications such as DNN, CNN, and RNN, for predicting the sequence of DNA and RNA binding proteins, expression of the gene, and splicing control. In addition, the book addresses the effect of multiomics data analysis of cancers using tensor decomposition, machine learning techniques for protein engineering, CNN applications on genomics, challenges of long noncoding RNAs in human disease diagnosis, and how machine learning can be used as a tool to shape the future of medicine. More importantly, it gives a comparative analysis and validates the outcomes of machine learning methods on genomic data to the functional laboratory tests or by formal clinical assessment. The topics of this book will cater interest to academicians, practitioners working in the field of functional genomics, and machine learning. Also, this book shall guide comprehensively the graduate, postgraduates, and Ph.D. scholars working in these fields.

Author: Angelo Facchiano
Publisher: Frontiers Media SA
ISBN: 2832544452
Category : Science
Languages : en
Pages : 160

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Author: Chen Qingfeng
Publisher: Frontiers Media SA
ISBN: 2889716007
Category : Science
Languages : en
Pages : 220

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Author: Thorsten Joachims
Publisher: Springer Science & Business Media
ISBN: 1461509076
Category : Computers
Languages : en
Pages : 218

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Based on ideas from Support Vector Machines (SVMs), Learning To Classify Text Using Support Vector Machines presents a new approach to generating text classifiers from examples. The approach combines high performance and efficiency with theoretical understanding and improved robustness. In particular, it is highly effective without greedy heuristic components. The SVM approach is computationally efficient in training and classification, and it comes with a learning theory that can guide real-world applications. Learning To Classify Text Using Support Vector Machines gives a complete and detailed description of the SVM approach to learning text classifiers, including training algorithms, transductive text classification, efficient performance estimation, and a statistical learning model of text classification. In addition, it includes an overview of the field of text classification, making it self-contained even for newcomers to the field. This book gives a concise introduction to SVMs for pattern recognition, and it includes a detailed description of how to formulate text-classification tasks for machine learning.

Author: Claudio Stamile
Publisher: Packt Publishing Ltd
ISBN: 1800206755
Category : Computers
Languages : en
Pages : 338

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Build machine learning algorithms using graph data and efficiently exploit topological information within your models Key Features Implement machine learning techniques and algorithms in graph data Identify the relationship between nodes in order to make better business decisions Apply graph-based machine learning methods to solve real-life problems Book Description Graph Machine Learning will introduce you to a set of tools used for processing network data and leveraging the power of the relation between entities that can be used for predictive, modeling, and analytics tasks. The first chapters will introduce you to graph theory and graph machine learning, as well as the scope of their potential use. You'll then learn all you need to know about the main machine learning models for graph representation learning: their purpose, how they work, and how they can be implemented in a wide range of supervised and unsupervised learning applications. You'll build a complete machine learning pipeline, including data processing, model training, and prediction in order to exploit the full potential of graph data. After covering the basics, you'll be taken through real-world scenarios such as extracting data from social networks, text analytics, and natural language processing (NLP) using graphs and financial transaction systems on graphs. You'll also learn how to build and scale out data-driven applications for graph analytics to store, query, and process network information, and explore the latest trends on graphs. By the end of this machine learning book, you will have learned essential concepts of graph theory and all the algorithms and techniques used to build successful machine learning applications. What you will learn Write Python scripts to extract features from graphs Distinguish between the main graph representation learning techniques Learn how to extract data from social networks, financial transaction systems, for text analysis, and more Implement the main unsupervised and supervised graph embedding techniques Get to grips with shallow embedding methods, graph neural networks, graph regularization methods, and more Deploy and scale out your application seamlessly Who this book is for This book is for data scientists, data analysts, graph analysts, and graph professionals who want to leverage the information embedded in the connections and relations between data points to boost their analysis and model performance using machine learning. It will also be useful for machine learning developers or anyone who wants to build ML-driven graph databases. A beginner-level understanding of graph databases and graph data is required, alongside a solid understanding of ML basics. You'll also need intermediate-level Python programming knowledge to get started with this book.

Author: Tomaž Bratanic
Publisher: Simon and Schuster
ISBN: 1617299464
Category : Computers
Languages : en
Pages : 350

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Book Description
Graph Algorithms for Data Science teaches you how to construct graphs from both structured and unstructured data. You'll learn how the flexible Cypher query language can be used to easily manipulate graph structures, and extract amazing insights. Graph Algorithms for Data Science is a hands-on guide to working with graph-based data in applications. It's filled with fascinating and fun projects, demonstrating the ins-and-outs of graphs. You'll gain practical skills by analyzing Twitter, building graphs with NLP techniques, and much more. These powerful graph algorithms are explained in clear, jargon-free text and illustrations that makes them easy to apply to your own projects.

Author: Amarnag Subramanya
Publisher: Morgan & Claypool Publishers
ISBN: 162705202X
Category : Computers
Languages : en
Pages : 127

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Book Description
While labeled data is expensive to prepare, ever increasing amounts of unlabeled data is becoming widely available. In order to adapt to this phenomenon, several semi-supervised learning (SSL) algorithms, which learn from labeled as well as unlabeled data, have been developed. In a separate line of work, researchers have started to realize that graphs provide a natural way to represent data in a variety of domains. Graph-based SSL algorithms, which bring together these two lines of work, have been shown to outperform the state-of-the-art in many applications in speech processing, computer vision, natural language processing, and other areas of Artificial Intelligence. Recognizing this promising and emerging area of research, this synthesis lecture focuses on graph-based SSL algorithms (e.g., label propagation methods). Our hope is that after reading this book, the reader will walk away with the following: (1) an in-depth knowledge of the current state-of-the-art in graph-based SSL algorithms, and the ability to implement them; (2) the ability to decide on the suitability of graph-based SSL methods for a problem; and (3) familiarity with different applications where graph-based SSL methods have been successfully applied. Table of Contents: Introduction / Graph Construction / Learning and Inference / Scalability / Applications / Future Work / Bibliography / Authors' Biographies / Index

Author: William L. William L. Hamilton
Publisher: Springer Nature
ISBN: 3031015886
Category : Computers
Languages : en
Pages : 141

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Book Description
Graph-structured data is ubiquitous throughout the natural and social sciences, from telecommunication networks to quantum chemistry. Building relational inductive biases into deep learning architectures is crucial for creating systems that can learn, reason, and generalize from this kind of data. Recent years have seen a surge in research on graph representation learning, including techniques for deep graph embeddings, generalizations of convolutional neural networks to graph-structured data, and neural message-passing approaches inspired by belief propagation. These advances in graph representation learning have led to new state-of-the-art results in numerous domains, including chemical synthesis, 3D vision, recommender systems, question answering, and social network analysis. This book provides a synthesis and overview of graph representation learning. It begins with a discussion of the goals of graph representation learning as well as key methodological foundations in graph theory and network analysis. Following this, the book introduces and reviews methods for learning node embeddings, including random-walk-based methods and applications to knowledge graphs. It then provides a technical synthesis and introduction to the highly successful graph neural network (GNN) formalism, which has become a dominant and fast-growing paradigm for deep learning with graph data. The book concludes with a synthesis of recent advancements in deep generative models for graphs—a nascent but quickly growing subset of graph representation learning.