Data-Centric Biology

Data-Centric Biology

Author: Sabina Leonelli

Publisher: University of Chicago Press

Published: 2016-11-18

Total Pages: 282

ISBN-13: 022641650X

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In recent decades, there has been a major shift in the way researchers process and understand scientific data. Digital access to data has revolutionized ways of doing science in the biological and biomedical fields, leading to a data-intensive approach to research that uses innovative methods to produce, store, distribute, and interpret huge amounts of data. In Data-Centric Biology, Sabina Leonelli probes the implications of these advancements and confronts the questions they pose. Are we witnessing the rise of an entirely new scientific epistemology? If so, how does that alter the way we study and understand life—including ourselves? Leonelli is the first scholar to use a study of contemporary data-intensive science to provide a philosophical analysis of the epistemology of data. In analyzing the rise, internal dynamics, and potential impact of data-centric biology, she draws on scholarship across diverse fields of science and the humanities—as well as her own original empirical material—to pinpoint the conditions under which digitally available data can further our understanding of life. Bridging the divide between historians, sociologists, and philosophers of science, Data-Centric Biology offers a nuanced account of an issue that is of fundamental importance to our understanding of contemporary scientific practices.


Data Journeys in the Sciences

Data Journeys in the Sciences

Author: Sabina Leonelli

Publisher: Springer Nature

Published: 2020-06-29

Total Pages: 411

ISBN-13: 3030371778

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This groundbreaking, open access volume analyses and compares data practices across several fields through the analysis of specific cases of data journeys. It brings together leading scholars in the philosophy, history and social studies of science to achieve two goals: tracking the travel of data across different spaces, times and domains of research practice; and documenting how such journeys affect the use of data as evidence and the knowledge being produced. The volume captures the opportunities, challenges and concerns involved in making data move from the sites in which they are originally produced to sites where they can be integrated with other data, analysed and re-used for a variety of purposes. The in-depth study of data journeys provides the necessary ground to examine disciplinary, geographical and historical differences and similarities in data management, processing and interpretation, thus identifying the key conditions of possibility for the widespread data sharing associated with Big and Open Data. The chapters are ordered in sections that broadly correspond to different stages of the journeys of data, from their generation to the legitimisation of their use for specific purposes. Additionally, the preface to the volume provides a variety of alternative “roadmaps” aimed to serve the different interests and entry points of readers; and the introduction provides a substantive overview of what data journeys can teach about the methods and epistemology of research.


Data and Society

Data and Society

Author: Anne Beaulieu

Publisher: SAGE

Published: 2021-10-27

Total Pages: 225

ISBN-13: 1529765129

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Data and Society: A Critical Introduction investigates the growing importance of data as a technological, social, economic and scientific resource. It explains how data practices have come to underpin all aspects of human life and explores what this means for those directly involved in handling data. The book fosters informed debate over the role of data in contemporary society explains the significance of data as evidence beyond the "Big Data" hype spans the technical, sociological, philosophical and ethical dimensions of data provides guidance on how to use data responsibly includes data stories that provide concrete cases and discussion questions. Grounded in examples spanning genetics, sport and digital innovation, this book fosters insight into the deep interrelations between technical, social and ethical aspects of data work.


Biological Individuality

Biological Individuality

Author: Scott Lidgard

Publisher: University of Chicago Press

Published: 2017-05-24

Total Pages: 368

ISBN-13: 022644659X

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Individuals are things that everybody knows—or thinks they do. Yet even scholars who practice or analyze the biological sciences often cannot agree on what an individual is and why. One reason for this disagreement is that the many important biological individuality concepts serve very different purposes—defining, classifying, or explaining living structure, function, interaction, persistence, or evolution. Indeed, as the contributors to Biological Individuality reveal, nature is too messy for simple definitions of this concept, organisms too quirky in the diverse ways they reproduce, function, and interact, and human ideas about individuality too fraught with philosophical and historical meaning. Bringing together biologists, historians, and philosophers, this book provides a multifaceted exploration of biological individuality that identifies leading and less familiar perceptions of individuality both past and present, what they are good for, and in what contexts. Biological practice and theory recognize individuals at myriad levels of organization, from genes to organisms to symbiotic systems. We depend on these notions of individuality to address theoretical questions about multilevel natural selection and Darwinian fitness; to illuminate empirical questions about development, function, and ecology; to ground philosophical questions about the nature of organisms and causation; and to probe historical and cultural circumstances that resonate with parallel questions about the nature of society. Charting an interdisciplinary research agenda that broadens the frameworks in which biological individuality is discussed, this book makes clear that in the realm of the individual, there is not and should not be a direct path from biological paradigms based on model organisms through to philosophical generalization and historical reification.


Data-Intensive Science

Data-Intensive Science

Author: Terence Critchlow

Publisher: CRC Press

Published: 2016-04-19

Total Pages: 432

ISBN-13: 1439881413

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Data-intensive science has the potential to transform scientific research and quickly translate scientific progress into complete solutions, policies, and economic success. But this collaborative science is still lacking the effective access and exchange of knowledge among scientists, researchers, and policy makers across a range of disciplines. Bringing together leaders from multiple scientific disciplines, Data-Intensive Science shows how a comprehensive integration of various techniques and technological advances can effectively harness the vast amount of data being generated and significantly accelerate scientific progress to address some of the world's most challenging problems. In the book, a diverse cross-section of application, computer, and data scientists explores the impact of data-intensive science on current research and describes emerging technologies that will enable future scientific breakthroughs. The book identifies best practices used to tackle challenges facing data-intensive science as well as gaps in these approaches. It also focuses on the integration of data-intensive science into standard research practice, explaining how components in the data-intensive science environment need to work together to provide the necessary infrastructure for community-scale scientific collaborations. Organizing the material based on a high-level, data-intensive science workflow, this book provides an understanding of the scientific problems that would benefit from collaborative research, the current capabilities of data-intensive science, and the solutions to enable the next round of scientific advancements.


Biotic Borders

Biotic Borders

Author: Jeannie N. Shinozuka

Publisher: University of Chicago Press

Published: 2022-04-20

Total Pages: 313

ISBN-13: 0226817334

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"This timely book reveals how the increase in traffic of transpacific plants, insects, and peoples raised fears of a "biological yellow peril" beginning in the late nineteenth century, when mass quantities of nursery stock and other agricultural products were shipped from large, corporate nurseries in Japan to meet the growing demand for exotics in the United States. Jeannie Shinozuka marshals extensive research to explain how the categories of "native" and "invasive" defined groups as bio-invasions that must be regulated-or somehow annihilated-during a period of American empire-building. Shinozuka shows how the modern fixation on foreign species provided a linguistic and conceptual arsenal for anti-immigration movements that gained ground in the early twentieth century. Xenophobia fed concerns about biodiversity, and in turn facilitated the implementation of plant quarantine measures while also valuing, and devaluing, certain species over others. The emergence and rise of economic entomology and plant pathology alongside public health and anti-immigration movements was not merely coincidental. Ultimately, what this book unearths is that the inhumane and unjust incarceration of Japanese Americans during World War II cannot, and should not, be disentangled from this longer history"--


What is Life?

What is Life?

Author: Edward Regis

Publisher: Oxford University Press, USA

Published: 2009

Total Pages: 210

ISBN-13: 0195383419

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This book provides an introduction to the work of the scientists who were attempting literally to create life from scratch, starting with molecular components that they hope to assemble into the world's first synthetic living cell. The book also examines how scientists have unlocked the "three secrets of life," describes the key role played by ATP ("the ultimate driving force of all life"), and outlines the many attempts to explain how life first arose on earth, a puzzle that has given birth to a wide range of theories.


Biology in a Data-Driven World

Biology in a Data-Driven World

Author: Deepak Singh

Publisher: Chapman and Hall/CRC

Published: 2016-04-15

Total Pages: 250

ISBN-13: 9781439872376

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This work offers unique insight into how biology is evolving to meet the needs of data-intensive science. It examines the history of computational science and lessons learned, discusses the evolution of biology into a data-driven science, and addresses the challenges and complexities of modern, data-driven biology. Exploring the core technological and scientific challenges, including algorithmic and infrastructural requirements, the book analyzes common themes and differences between biology and other data-intensive sciences and highlights the future directions of the field and the skill sets that will be critical for future success.


Deep Learning in Biology and Medicine

Deep Learning in Biology and Medicine

Author: Davide Bacciu

Publisher: World Scientific Publishing Europe Limited

Published: 2021

Total Pages: 0

ISBN-13: 9781800610934

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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.


The Practice of Reproducible Research

The Practice of Reproducible Research

Author: Justin Kitzes

Publisher: Univ of California Press

Published: 2018

Total Pages: 364

ISBN-13: 0520294750

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The Practice of Reproducible Research presents concrete examples of how researchers in the data-intensive sciences are working to improve the reproducibility of their research projects. In each of the thirty-one case studies in this volume, the author or team describes the workflow that they used to complete a real-world research project. Authors highlight how they utilized particular tools, ideas, and practices to support reproducibility, emphasizing the very practical how, rather than the why or what, of conducting reproducible research. Part 1 provides an accessible introduction to reproducible research, a basic reproducible research project template, and a synthesis of lessons learned from across the thirty-one case studies. Parts 2 and 3 focus on the case studies themselves. The Practice of Reproducible Research is an invaluable resource for students and researchers who wish to better understand the practice of data-intensive sciences and learn how to make their own research more reproducible.