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Machine Learning Approaches To Multi Modal Data Integration And Translation In Single Cell Biology
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Book Synopsis Advances in methods and tools for multi-omics data analysis by : Ornella Cominetti
Download or read book Advances in methods and tools for multi-omics data analysis written by Ornella Cominetti and published by Frontiers Media SA. This book was released on 2023-05-12 with total page 184 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book DNA Methylation written by J. Jost and published by Birkhäuser. This book was released on 2013-11-11 with total page 581 pages. Available in PDF, EPUB and Kindle. Book excerpt: The occurrence of 5-methylcytosine in DNA was first described in 1948 by Hotchkiss (see first chapter). Recognition of its possible physiologi cal role in eucaryotes was first suggested in 1964 by Srinivasan and Borek (see first chapter). Since then work in a great many laboratories has established both the ubiquity of 5-methylcytosine and the catholicity of its possible regulatory function. The explosive increase in the number of publications dealing with DNA methylation attests to its importance and makes it impossible to write a comprehensive coverage of the literature within the scope of a general review. Since the publication of the 3 most recent books dealing with the subject (DNA methylation by Razin A. , Cedar H. and Riggs A. D. , 1984 Springer Verlag; Molecular Biology of DNA methylation by Adams R. L. P. and Burdon R. H. , 1985 Springer Verlag; Nucleic Acids Methylation, UCLA Symposium suppl. 128, 1989) considerable progress both in the techniques and results has been made in the field of DNA methylation. Thus we asked several authors to write chapters dealing with aspects of DNA methyla tion in which they are experts. This book should be most useful for students, teachers as well as researchers in the field of differentiation and gene regulation. We are most grateful to all our colleagues who were willing to spend much time and effort on the publication of this book. We also want to express our gratitude to Yan Chim Jost for her help in preparing this book.
Book Synopsis Omics Technologies Toward Systems Biology by : Fatemeh Maghuly
Download or read book Omics Technologies Toward Systems Biology written by Fatemeh Maghuly and published by Frontiers Media SA. This book was released on 2022-01-24 with total page 218 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Deep Learning in Biology and Medicine by : Davide Bacciu
Download or read book Deep Learning in Biology and Medicine written by Davide Bacciu and published by World Scientific Publishing Europe Limited. This book was released on 2021 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Biology, medicine and biochemistry have become data-centric fields for which Deep Learning methods are delivering groundbreaking results. Addressing high impact challenges, Deep Learning in Biology and Medicine provides an accessible and organic collection of Deep Learning essays on bioinformatics and medicine. It caters for a wide readership, ranging from machine learning practitioners and data scientists seeking methodological knowledge to address biomedical applications, to life science specialists in search of a gentle reference for advanced data analytics.With contributions from internationally renowned experts, the book covers foundational methodologies in a wide spectrum of life sciences applications, including electronic health record processing, diagnostic imaging, text processing, as well as omics-data processing. This survey of consolidated problems is complemented by a selection of advanced applications, including cheminformatics and biomedical interaction network analysis. A modern and mindful approach to the use of data-driven methodologies in the life sciences also requires careful consideration of the associated societal, ethical, legal and transparency challenges, which are covered in the concluding chapters of this book.
Book Synopsis Systems Biology and Single-cell Analysis of Cancer Metabolism and its Role in Cancer Emergent Properties by : Dongya Jia
Download or read book Systems Biology and Single-cell Analysis of Cancer Metabolism and its Role in Cancer Emergent Properties written by Dongya Jia and published by Frontiers Media SA. This book was released on 2023-06-21 with total page 153 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Automated Machine Learning by : Frank Hutter
Download or read book Automated Machine Learning written by Frank Hutter and published by Springer. This book was released on 2019-05-17 with total page 223 pages. Available in PDF, EPUB and Kindle. Book excerpt: This open access book presents the first comprehensive overview of general methods in Automated Machine Learning (AutoML), collects descriptions of existing systems based on these methods, and discusses the first series of international challenges of AutoML systems. The recent success of commercial ML applications and the rapid growth of the field has created a high demand for off-the-shelf ML methods that can be used easily and without expert knowledge. However, many of the recent machine learning successes crucially rely on human experts, who manually select appropriate ML architectures (deep learning architectures or more traditional ML workflows) and their hyperparameters. To overcome this problem, the field of AutoML targets a progressive automation of machine learning, based on principles from optimization and machine learning itself. This book serves as a point of entry into this quickly-developing field for researchers and advanced students alike, as well as providing a reference for practitioners aiming to use AutoML in their work.
Book Synopsis Interpretable Machine Learning by : Christoph Molnar
Download or read book Interpretable Machine Learning written by Christoph Molnar and published by Lulu.com. This book was released on 2020 with total page 320 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book is about making machine learning models and their decisions interpretable. After exploring the concepts of interpretability, you will learn about simple, interpretable models such as decision trees, decision rules and linear regression. Later chapters focus on general model-agnostic methods for interpreting black box models like feature importance and accumulated local effects and explaining individual predictions with Shapley values and LIME. All interpretation methods are explained in depth and discussed critically. How do they work under the hood? What are their strengths and weaknesses? How can their outputs be interpreted? This book will enable you to select and correctly apply the interpretation method that is most suitable for your machine learning project.
Book Synopsis Machine Learning and Knowledge Discovery in Databases by : Walter Daelemans
Download or read book Machine Learning and Knowledge Discovery in Databases written by Walter Daelemans and published by Springer Science & Business Media. This book was released on 2008-09-04 with total page 714 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the refereed proceedings of the joint conference on Machine Learning and Knowledge Discovery in Databases: ECML PKDD 2008, held in Antwerp, Belgium, in September 2008. The 100 papers presented in two volumes, together with 5 invited talks, were carefully reviewed and selected from 521 submissions. In addition to the regular papers the volume contains 14 abstracts of papers appearing in full version in the Machine Learning Journal and the Knowledge Discovery and Databases Journal of Springer. The conference intends to provide an international forum for the discussion of the latest high quality research results in all areas related to machine learning and knowledge discovery in databases. The topics addressed are application of machine learning and data mining methods to real-world problems, particularly exploratory research that describes novel learning and mining tasks and applications requiring non-standard techniques.
Book Synopsis Computational Stem Cell Biology by : Patrick Cahan
Download or read book Computational Stem Cell Biology written by Patrick Cahan and published by Humana. This book was released on 2019-05-07 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume details methods and protocols to further the study of stem cells within the computational stem cell biology (CSCB) field. Chapters are divided into four sections covering the theory and practice of modeling of stem cell behavior, analyzing single cell genome-scale measurements, reconstructing gene regulatory networks, and metabolomics. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Computational Stem Cell Biology: Methods and Protocols will be an invaluable guide to researchers as they explore stem cells from the perspective of computational biology.
Book Synopsis Kernel Methods in Computational Biology by : Bernhard Schölkopf
Download or read book Kernel Methods in Computational Biology written by Bernhard Schölkopf and published by MIT Press. This book was released on 2004 with total page 428 pages. Available in PDF, EPUB and Kindle. Book excerpt: A detailed overview of current research in kernel methods and their application to computational biology.
Book Synopsis Deep Learning with Keras by : Antonio Gulli
Download or read book Deep Learning with Keras written by Antonio Gulli and published by Packt Publishing Ltd. This book was released on 2017-04-26 with total page 310 pages. Available in PDF, EPUB and Kindle. Book excerpt: Get to grips with the basics of Keras to implement fast and efficient deep-learning models About This Book Implement various deep-learning algorithms in Keras and see how deep-learning can be used in games See how various deep-learning models and practical use-cases can be implemented using Keras A practical, hands-on guide with real-world examples to give you a strong foundation in Keras Who This Book Is For If you are a data scientist with experience in machine learning or an AI programmer with some exposure to neural networks, you will find this book a useful entry point to deep-learning with Keras. A knowledge of Python is required for this book. What You Will Learn Optimize step-by-step functions on a large neural network using the Backpropagation Algorithm Fine-tune a neural network to improve the quality of results Use deep learning for image and audio processing Use Recursive Neural Tensor Networks (RNTNs) to outperform standard word embedding in special cases Identify problems for which Recurrent Neural Network (RNN) solutions are suitable Explore the process required to implement Autoencoders Evolve a deep neural network using reinforcement learning In Detail This book starts by introducing you to supervised learning algorithms such as simple linear regression, the classical multilayer perceptron and more sophisticated deep convolutional networks. You will also explore image processing with recognition of hand written digit images, classification of images into different categories, and advanced objects recognition with related image annotations. An example of identification of salient points for face detection is also provided. Next you will be introduced to Recurrent Networks, which are optimized for processing sequence data such as text, audio or time series. Following that, you will learn about unsupervised learning algorithms such as Autoencoders and the very popular Generative Adversarial Networks (GAN). You will also explore non-traditional uses of neural networks as Style Transfer. Finally, you will look at Reinforcement Learning and its application to AI game playing, another popular direction of research and application of neural networks. Style and approach This book is an easy-to-follow guide full of examples and real-world applications to help you gain an in-depth understanding of Keras. This book will showcase more than twenty working Deep Neural Networks coded in Python using Keras.
Download or read book Metric Learning written by Aurélien Muise and published by Springer Nature. This book was released on 2022-05-31 with total page 139 pages. Available in PDF, EPUB and Kindle. Book excerpt: Similarity between objects plays an important role in both human cognitive processes and artificial systems for recognition and categorization. How to appropriately measure such similarities for a given task is crucial to the performance of many machine learning, pattern recognition and data mining methods. This book is devoted to metric learning, a set of techniques to automatically learn similarity and distance functions from data that has attracted a lot of interest in machine learning and related fields in the past ten years. In this book, we provide a thorough review of the metric learning literature that covers algorithms, theory and applications for both numerical and structured data. We first introduce relevant definitions and classic metric functions, as well as examples of their use in machine learning and data mining. We then review a wide range of metric learning algorithms, starting with the simple setting of linear distance and similarity learning. We show how one may scale-up these methods to very large amounts of training data. To go beyond the linear case, we discuss methods that learn nonlinear metrics or multiple linear metrics throughout the feature space, and review methods for more complex settings such as multi-task and semi-supervised learning. Although most of the existing work has focused on numerical data, we cover the literature on metric learning for structured data like strings, trees, graphs and time series. In the more technical part of the book, we present some recent statistical frameworks for analyzing the generalization performance in metric learning and derive results for some of the algorithms presented earlier. Finally, we illustrate the relevance of metric learning in real-world problems through a series of successful applications to computer vision, bioinformatics and information retrieval. Table of Contents: Introduction / Metrics / Properties of Metric Learning Algorithms / Linear Metric Learning / Nonlinear and Local Metric Learning / Metric Learning for Special Settings / Metric Learning for Structured Data / Generalization Guarantees for Metric Learning / Applications / Conclusion / Bibliography / Authors' Biographies
Book Synopsis Computational Optimal Transport by : Gabriel Peyre
Download or read book Computational Optimal Transport written by Gabriel Peyre and published by Foundations and Trends(r) in M. This book was released on 2019-02-12 with total page 272 pages. Available in PDF, EPUB and Kindle. Book excerpt: The goal of Optimal Transport (OT) is to define geometric tools that are useful to compare probability distributions. Their use dates back to 1781. Recent years have witnessed a new revolution in the spread of OT, thanks to the emergence of approximate solvers that can scale to sizes and dimensions that are relevant to data sciences. Thanks to this newfound scalability, OT is being increasingly used to unlock various problems in imaging sciences (such as color or texture processing), computer vision and graphics (for shape manipulation) or machine learning (for regression, classification and density fitting). This monograph reviews OT with a bias toward numerical methods and their applications in data sciences, and sheds lights on the theoretical properties of OT that make it particularly useful for some of these applications. Computational Optimal Transport presents an overview of the main theoretical insights that support the practical effectiveness of OT before explaining how to turn these insights into fast computational schemes. Written for readers at all levels, the authors provide descriptions of foundational theory at two-levels. Generally accessible to all readers, more advanced readers can read the specially identified more general mathematical expositions of optimal transport tailored for discrete measures. Furthermore, several chapters deal with the interplay between continuous and discrete measures, and are thus targeting a more mathematically-inclined audience. This monograph will be a valuable reference for researchers and students wishing to get a thorough understanding of Computational Optimal Transport, a mathematical gem at the interface of probability, analysis and optimization.
Book Synopsis Advances in Neural Information Processing Systems 15 by : Suzanna Becker
Download or read book Advances in Neural Information Processing Systems 15 written by Suzanna Becker and published by MIT Press. This book was released on 2003 with total page 1738 pages. Available in PDF, EPUB and Kindle. Book excerpt: Proceedings of the 2002 Neural Information Processing Systems Conference.
Book Synopsis Artificial Intelligence in Design ’96 by : John S. Gero
Download or read book Artificial Intelligence in Design ’96 written by John S. Gero and published by Springer Science & Business Media. This book was released on 2012-12-06 with total page 765 pages. Available in PDF, EPUB and Kindle. Book excerpt: Change is one of the most significant parameters in our society. Designers are amongst the primary change agents for any society. As a consequence design is an important research topic in engineering and architecture and related disciplines, since design is not only a means of change but is also one of the keystones to economic competitiveness and the fundamental precursor to manufacturing. The development of computational models founded on the artificial intelligence paradigm has provided an impetus for much of current design research -both computational and cognitive. These forms of design research have only been carried out in the last decade or so and in the temporal sense they are still immature. Notwithstanding this immaturity, noticeable advances have been made both in extending our understanding of design and in developing tools based on that understanding. Whilst many researchers in the field of artificial intelligence in design utilise ideas about how humans design as one source of concepts there is normally no attempt to model human designers. Rather the results of the research presented in this volume demonstrate approaches to increasing our understanding of design as a process.
Book Synopsis Revolutions in Human Biospecimen Study: Leveraging new technologies to explore the pathology, therapeutics and biomarkers for atherosclerotic disease by : Ying Wang
Download or read book Revolutions in Human Biospecimen Study: Leveraging new technologies to explore the pathology, therapeutics and biomarkers for atherosclerotic disease written by Ying Wang and published by Frontiers Media SA. This book was released on 2023-11-20 with total page 141 pages. Available in PDF, EPUB and Kindle. Book excerpt: Over the last few years, new high-throughput biotechnologies are revolutionizing our ways to utilize human biospecimens for understanding atherosclerotic disease. These recent advances allow deep profiling of individual cells at the genomics, epigenomics, transcriptomics and proteomics levels, or even simultaneous detection of various combinations of ‘Omics’ in the same cell. Additionally, novel methods to integrate data at different levels from tissue sections and dissociated tissues are the emerging trends in large and institutional biobank studies. Growing literature has shown the value of such sequencing and bioinformatic strategies in shedding light on (1) how risk genes, as identified by the Genome-Wide Association Study, contribute to atherogenesis (genotype to phenotype), and (2) how features of atherosclerotic lesions affect patient response in clinical trials (phenotype to the clinical outcome). The hybrid of cutting-edge biotechnologies and bioinformatic approaches helps us maximize biobank resources to accelerate bench-to-bedside research.
Book Synopsis Modulating Gene Expression by : Aditi Singh
Download or read book Modulating Gene Expression written by Aditi Singh and published by BoD – Books on Demand. This book was released on 2019-05-29 with total page 136 pages. Available in PDF, EPUB and Kindle. Book excerpt: RNA interference (RNAi) is a widely used technology for gene silencing and has become a key tool in a myriad of research and lead discoveries. In recent years, the mechanism of RNAi agents has been well investigated, and the technique has been optimized for better effectiveness and safety. On the other hand, the clustered regularly interspaced short palindromic repeats (CRISPR)-associated Cas9/gRNA system is a recent, novel, targeted genome-editing technique derived from the bacterial immune system. Recent advances in gene-editing research and technologies have enabled the CRISPR Cas9 system to become a popular tool for sequence-specific gene editing to correct and modify eukaryotic systems. In this book, we will focus on the mechanisms, applications, regulations (their pros and cons), and various ways in which RNAi-based methods and CRIPSR-Cas9 technology have stimulated the modulation of gene expression, thereby making them a promising therapeutic tool to treat and prevent complex diseases and disorders.
