Bioimage Data Analysis Workflows
Bioimage Data Analysis Workflows

Author: Kota Miura

Publisher: Springer Nature

Published: 2019-10-17

Total Pages: 178

ISBN-13: 3030223868

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This Open Access textbook provides students and researchers in the life sciences with essential practical information on how to quantitatively analyze data images. It refrains from focusing on theory, and instead uses practical examples and step-by step protocols to familiarize readers with the most commonly used image processing and analysis platforms such as ImageJ, MatLab and Python. Besides gaining knowhow on algorithm usage, readers will learn how to create an analysis pipeline by scripting language; these skills are important in order to document reproducible image analysis workflows. The textbook is chiefly intended for advanced undergraduates in the life sciences and biomedicine without a theoretical background in data analysis, as well as for postdocs, staff scientists and faculty members who need to perform regular quantitative analyses of microscopy images.

Bioimage Data Analysis Workflows ‒ Advanced Components and Methods
Bioimage Data Analysis Workflows ‒ Advanced Components and Methods

Author: Kota Miura

Publisher: Springer Nature

Published: 2022-09-28

Total Pages: 218

ISBN-13: 3030763943

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This open access textbook aims at providing detailed explanations on how to design and construct image analysis workflows to successfully conduct bioimage analysis. Addressing the main challenges in image data analysis, where acquisition by powerful imaging devices results in very large amounts of collected image data, the book discusses techniques relying on batch and GPU programming, as well as on powerful deep learning-based algorithms. In addition, downstream data processing techniques are introduced, such as Python libraries for data organization, plotting, and visualizations. Finally, by studying the way individual unique ideas are implemented in the workflows, readers are carefully guided through how the parameters driving biological systems are revealed by analyzing image data. These studies include segmentation of plant tissue epidermis, analysis of the spatial pattern of the eye development in fruit flies, and the analysis of collective cell migration dynamics. The presented content extends the Bioimage Data Analysis Workflows textbook (Miura, Sladoje, 2020), published in this same series, with new contributions and advanced material, while preserving the well-appreciated pedagogical approach adopted and promoted during the training schools for bioimage analysis organized within NEUBIAS – the Network of European Bioimage Analysts. This textbook is intended for advanced students in various fields of the life sciences and biomedicine, as well as staff scientists and faculty members who conduct regular quantitative analyses of microscopy images.

Standard and Super-Resolution Bioimaging Data Analysis
Standard and Super-Resolution Bioimaging Data Analysis

Author: Ann Wheeler

Publisher: John Wiley & Sons

Published: 2017-10-12

Total Pages: 311

ISBN-13: 1119096928

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A comprehensive guide to the art and science of bioimaging data acquisition, processing and analysis Standard and Super-Resolution Bioimaging Data Analysis gets newcomers to bioimage data analysis quickly up to speed on the mathematics, statistics, computing hardware and acquisition technologies required to correctly process and document data. The past quarter century has seen remarkable progress in the field of light microscopy for biomedical science, with new imaging technologies coming on the market at an almost annual basis. Most of the data generated by these systems is image-based, and there is a significant increase in the content and throughput of these imaging systems. This, in turn, has resulted in a shift in the literature on biomedical research from descriptive to highly-quantitative. Standard and Super-Resolution Bioimaging Data Analysis satisfies the demand among students and research scientists for introductory guides to the tools for parsing and processing image data. Extremely well illustrated and including numerous examples, it clearly and accessibly explains what image data is and how to process and document it, as well as the current resources and standards in the field. A comprehensive guide to the tools for parsing and processing image data and the resources and industry standards for the biological and biomedical sciences Takes a practical approach to image analysis to assist scientists in ensuring scientific data are robust and reliable Covers fundamental principles in such a way as to give beginners a sound scientific base upon which to build Ideally suited for advanced students having only limited knowledge of the mathematics, statistics and computing required for image data analysis An entry-level text written for students and practitioners in the bioscience community, Standard and Super-Resolution Bioimaging Data Analysis de-mythologises the vast array of image analysis modalities which have come online over the past decade while schooling beginners in bioimaging principles, mathematics, technologies and standards.

Bioimage Data Analysis Workflows
Bioimage Data Analysis Workflows

Author: Natasa Sladoje

Publisher:

Published: 2020-10-08

Total Pages: 176

ISBN-13: 9781013271939

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This Open Access textbook provides students and researchers in the life sciences with essential practical information on how to quantitatively analyze data images. It refrains from focusing on theory, and instead uses practical examples and step-by step protocols to familiarize readers with the most commonly used image processing and analysis platforms such as ImageJ, MatLab and Python. Besides gaining knowhow on algorithm usage, readers will learn how to create an analysis pipeline by scripting language; these skills are important in order to document reproducible image analysis workflows. The textbook is chiefly intended for advanced undergraduates in the life sciences and biomedicine without a theoretical background in data analysis, as well as for postdocs, staff scientists and faculty members who need to perform regular quantitative analyses of microscopy images. This work was published by Saint Philip Street Press pursuant to a Creative Commons license permitting commercial use. All rights not granted by the work's license are retained by the author or authors.

Epigenetics and Proteomics of Leukemia
Epigenetics and Proteomics of Leukemia

Author: R ̄uta Navakauskien ̇e

Publisher: Springer Nature

Published: 2021-09-14

Total Pages: 453

ISBN-13: 3030687082

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This book reviews the current state of epigenetics and proteomics of leukemia and introduces the methods that are important to process and evaluate these factors in leukemia. In particular, epigenetic modifiers and their inhibitors in leukemia treatment as well as approaches to the epigenetic treatment of leukemia are covered. Various computational methods for proteome analysis are also described in detail, including 2DE fractionation and visualization, proteomic data processing, image acquisition and data anlaysis, and more. Protein localization in leukemia is also covered, in addition to the future of leukemia therapy. Epigenetics and Proteomics of Leukemia is an ideal book for advanced biomedical scientists and students, medical doctors and students, bioinformatics and health informatics researchers, computational biologists, structural biologists, systems biologists, and bioengineers.

Fluorescence Spectroscopy and Microscopy in Biology
Fluorescence Spectroscopy and Microscopy in Biology

Author: Radek Šachl

Publisher: Springer Nature

Published: 2023-04-27

Total Pages: 532

ISBN-13: 3031303628

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This book provides the reader with an updated comprehensive view of the rapidly developing and fascinating field of fluorescence spectroscopy and microscopy. In recent years, fluorescence spectroscopy and microscopy have experienced rapid technological development, which has enabled the detection and monitoring of single molecules with high spatial and temporal resolution. Thanks to these developments, fluorescence has become an even more popular method in physical, biological and related fields. This book guides the reader through both basic and advanced fluorescence spectroscopy and microscopy approaches with a focus on their applications in membrane and protein biophysics. Each of the four parts: A - Fluorescence Spectroscopy, B - Fluorescence Microscopy, C - Applications of Fluorescence Spectroscopy and Microscopy to biological membranes and D - Applications of Fluorescence Spectroscopy to protein studies are written by experts within the field. The book is intended for both complete beginners who want to quickly orient themselves in the large number of existing fluorescent methods, as well as for advanced readers who are interested in particular methods and their proper use.

Digital Pathology
Digital Pathology

Author: Constantino Carlos Reyes-Aldasoro

Publisher: Springer

Published: 2019-07-03

Total Pages: 200

ISBN-13: 3030239373

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This book constitutes the refereed proceedings of the 15th European Congress on Digital Pathology, ECDP 2019, held in Warwick, UK in April 2019. The 21 full papers presented in this volume were carefully reviewed and selected from 30 submissions. The congress theme will be Accelerating Clinical Deployment, with a focus on computational pathology and leveraging the power of big data and artificial intelligence to bridge the gaps between research, development, and clinical uptake.

Excel Data Analysis
Excel Data Analysis

Author: Hector Guerrero

Publisher: Springer

Published: 2018-12-14

Total Pages: 358

ISBN-13: 3030012794

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This book offers a comprehensive and readable introduction to modern business and data analytics. It is based on the use of Excel, a tool that virtually all students and professionals have access to. The explanations are focused on understanding the techniques and their proper application, and are supplemented by a wealth of in-chapter and end-of-chapter exercises. In addition to the general statistical methods, the book also includes Monte Carlo simulation and optimization. The second edition has been thoroughly revised: new topics, exercises and examples have been added, and the readability has been further improved. The book is primarily intended for students in business, economics and government, as well as professionals, who need a more rigorous introduction to business and data analytics – yet also need to learn the topic quickly and without overly academic explanations.

Light Sheet Fluorescence Microscopy
Light Sheet Fluorescence Microscopy

Author: Emmanuel G. Reynaud

Publisher: John Wiley & Sons

Published: 2024-01-31

Total Pages: 421

ISBN-13: 3527803939

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Light Sheet Fluorescence Microscopy An indispensable guide to a novel, revolutionary fluorescence microscopy technique! Light sheet fluorescence microscopy has revolutionized microscopy, since it allows scientists to perform experiments in an entirely different manner and to record data that had not been accessible before. With contributions from noted experts in the fields of physics, biology, and computer science, Light Sheet Fluorescence Microscopy is a unique guide that offers a practical approach to the subject, including information on the basics of light sheet fluorescence microscopy, instrumentation, applications, sample preparation, and data analysis. Comprehensive in scope, the book is filled with the cutting-edge methods as well as valuable insider tips. Grounded in real-world applications, the book includes chapters from major manufacturers that explores their recent systems and developments. In addition, the book hightlights a discussion of a “do-it-yourself” light sheet microscope, making the technique affordable for every laboratory. This important textbook: Serves as an easy-to-understand introduction to light sheet-based fluorescence Includes numerous tips and tricks for advanced practitioners Provides in-depth information on hardware and software solutions for a straightforward implementation of light sheet fluorescence microscopy in the lab Includes chapters from the major manufacturers including Zeiss, Leica, Lavision Biotech, Phase View, and Asi Aimed at cell biologists, biophysicists, developmental biologists, and neuro-biologists, Light Sheet Fluorescence Microscopy offers a comprehensive overview of the most recent applications of this microscopy technique.