Skip to main content

Reproducibility In Biomedical Research

Download Reproducibility In Biomedical Research Full eBooks in PDF, EPUB, and kindle. Reproducibility In Biomedical Research is one my favorite book and give us some inspiration, very enjoy to read. you could read this book anywhere anytime directly from your device.

Research in the Biomedical Sciences

Research in the Biomedical Sciences Book
Author : Michael Curtis,Michael Williams
Publisher : Academic Press
Release : 2017-06-01
ISBN : 9780128047255
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

Research in the Biomedical Sciences: Transparent and Reproducible documents the widespread concerns related to reproducibility in biomedical research and provides a best practices guide to effective and transparent hypothesis generation, experimental design, reagent standardization (including validation and authentication), statistical analysis, and data reporting. The book addresses issues in the perceived value of the existing peer review process and calls for the need for improved transparency in data reporting. It reflects new guidelines for publication that include manuscript checklists, replication/reproducibility initiatives, and the potential consequences for the biomedical research community and societal health and well-being if training, mentoring, and funding of new generations of researchers and incentives for publications are not improved. This book offers real world examples, insights, and solutions to provide a thought-provoking and timely resource for all those learning about, or engaged in, performing and supervising research across the biomedical sciences. Provides a "big picture" perspective that includes the scope of the replicability issue and covers initiatives that have the potential to act as effective solutions Offers real world research context for transparent, replicable experimental design and execution and reporting of biomedical research with the potential to address aspects of the translational gap in drug discovery Highlights the importance of reproducibility and the necessary changes in biomedical and pharmaceutical research training and incentives to ensure sustainability

Reproducibility and Replicability in Science

Reproducibility and Replicability in Science Book
Author : National Academies of Sciences, Engineering, and Medicine,Policy and Global Affairs,Committee on Science, Engineering, Medicine, and Public Policy,Board on Research Data and Information,Division on Engineering and Physical Sciences,Committee on Applied and Theoretical Statistics,Board on Mathematical Sciences and Analytics,Division on Earth and Life Studies,Nuclear and Radiation Studies Board,Division of Behavioral and Social Sciences and Education,Committee on National Statistics,Board on Behavioral, Cognitive, and Sensory Sciences,Committee on Reproducibility and Replicability in Science
Publisher : National Academies Press
Release : 2019-10-20
ISBN : 0309486165
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

One of the pathways by which the scientific community confirms the validity of a new scientific discovery is by repeating the research that produced it. When a scientific effort fails to independently confirm the computations or results of a previous study, some fear that it may be a symptom of a lack of rigor in science, while others argue that such an observed inconsistency can be an important precursor to new discovery. Concerns about reproducibility and replicability have been expressed in both scientific and popular media. As these concerns came to light, Congress requested that the National Academies of Sciences, Engineering, and Medicine conduct a study to assess the extent of issues related to reproducibility and replicability and to offer recommendations for improving rigor and transparency in scientific research. Reproducibility and Replicability in Science defines reproducibility and replicability and examines the factors that may lead to non-reproducibility and non-replicability in research. Unlike the typical expectation of reproducibility between two computations, expectations about replicability are more nuanced, and in some cases a lack of replicability can aid the process of scientific discovery. This report provides recommendations to researchers, academic institutions, journals, and funders on steps they can take to improve reproducibility and replicability in science.

Enhancing Scientific Reproducibility in Biomedical Research Through Transparent Reporting

Enhancing Scientific Reproducibility in Biomedical Research Through Transparent Reporting Book
Author : National Academies of Sciences, Engineering, and Medicine,Health and Medicine Division,Board on Health Care Services,Board on Health Sciences Policy,Roundtable on Genomics and Precision Health,National Cancer Policy Forum,Forum on Neuroscience and Nervous System Disorders,Forum on Drug Discovery, Development, and Translation
Publisher : National Academies Press
Release : 2020-04-28
ISBN : 0309664063
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

Sharing knowledge is what drives scientific progress - each new advance or innovation in biomedical research builds on previous observations. However, for experimental findings to be broadly accepted as credible by the scientific community, they must be verified by other researchers. An essential step is for researchers to report their findings in a manner that is understandable to others in the scientific community and provide sufficient information for others to validate the original results and build on them. In recent years, concern has been growing over a number of studies that have failed to replicate previous results and evidence from larger meta-analyses, which have pointed to the lack of reproducibility in biomedical research. On September 25 and 26, 2019, the National Academies of Science, Engineering, and Medicine hosted a public workshop in Washington, DC, to discuss the current state of transparency in the reporting of preclinical biomedical research and to explore opportunities for harmonizing reporting guidelines across journals and funding agencies. Convened jointly by the Forum on Drug Discovery, Development, and Translation; the Forum on Neuroscience and Nervous System Disorders; the National Cancer Policy Forum; and the Roundtable on Genomics and Precision Health, the workshop primarily focused on transparent reporting in preclinical research, but also considered lessons learned and best practices from clinical research reporting. This publication summarizes the presentation and discussion of the workshop.

Reproducibility in Biomedical Research

Reproducibility in Biomedical Research Book
Author : Erwin B. Montgomery
Publisher : Academic Press
Release : 2019-03-14
ISBN : 0128176725
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

Reproducibility in Biomedical Research: Epistemological and Statistical Problems explores the ideas and conundrums inherent in scientific research. It explores factors of reproducibility, including logic, distinguishing productive from unproductive irreproducibility, the scientific method, and the use of statistics. In multiple examples and six detailed case studies, the book demonstrates the misuse of logic resulting in unproductive irreproducibility, allowing researchers to develop their own logic and planning abilities. Biomedical researchers, clinicians, administrators of scientific institutions and funding agencies, journal editors, philosophers of science and medicine will find the arguments and explorations a valuable addition to their libraries. Considers the meaning and purpose of reproducibility to help design research Reviews famous case studies of alleged irreproducibility to determine if these could be reproducible Provides a theoretical aspect to practical issues surrounding research design and conduct

Implementing Reproducible Research

Implementing Reproducible Research Book
Author : Victoria Stodden,Friedrich Leisch,Roger D. Peng
Publisher : CRC Press
Release : 2014-04-14
ISBN : 1466561599
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

In computational science, reproducibility requires that researchers make code and data available to others so that the data can be analyzed in a similar manner as in the original publication. Code must be available to be distributed, data must be accessible in a readable format, and a platform must be available for widely distributing the data and code. In addition, both data and code need to be licensed permissively enough so that others can reproduce the work without a substantial legal burden. Implementing Reproducible Research covers many of the elements necessary for conducting and distributing reproducible research. It explains how to accurately reproduce a scientific result. Divided into three parts, the book discusses the tools, practices, and dissemination platforms for ensuring reproducibility in computational science. It describes: Computational tools, such as Sweave, knitr, VisTrails, Sumatra, CDE, and the Declaratron system Open source practices, good programming practices, trends in open science, and the role of cloud computing in reproducible research Software and methodological platforms, including open source software packages, RunMyCode platform, and open access journals Each part presents contributions from leaders who have developed software and other products that have advanced the field. Supplementary material is available at www.ImplementingRR.org.

Reproducible Research with R and RStudio

Reproducible Research with R and RStudio Book
Author : Christopher Gandrud
Publisher : CRC Press
Release : 2020-02-21
ISBN : 0429627955
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

Praise for previous editions: "Gandrud has written a great outline of how a fully reproducible research project should look from start to finish, with brief explanations of each tool that he uses along the way... Advanced undergraduate students in mathematics, statistics, and similar fields as well as students just beginning their graduate studies would benefit the most from reading this book. Many more experienced R users or second-year graduate students might find themselves thinking, ‘I wish I’d read this book at the start of my studies, when I was first learning R!’...This book could be used as the main text for a class on reproducible research ..." (The American Statistician) Reproducible Research with R and R Studio, Third Edition brings together the skills and tools needed for doing and presenting computational research. Using straightforward examples, the book takes you through an entire reproducible research workflow. This practical workflow enables you to gather and analyze data as well as dynamically present results in print and on the web. Supplementary materials and example are available on the author’s website. New to the Third Edition Updated package recommendations, examples, URLs, and removed technologies no longer in regular use. More advanced R Markdown (and less LaTeX) in discussions of markup languages and examples. Stronger focus on reproducible working directory tools. Updated discussion of cloud storage services and persistent reproducible material citation. Added discussion of Jupyter notebooks and reproducible practices in industry. Examples of data manipulation with Tidyverse tibbles (in addition to standard data frames) and pivot_longer() and pivot_wider() functions for pivoting data. Features Incorporates the most important advances that have been developed since the editions were published Describes a complete reproducible research workflow, from data gathering to the presentation of results Shows how to automatically generate tables and figures using R Includes instructions on formatting a presentation document via markup languages Discusses cloud storage and versioning services, particularly Github Explains how to use Unix-like shell programs for working with large research projects

Advancing Disease Modeling in Animal Based Research in Support of Precision Medicine

Advancing Disease Modeling in Animal Based Research in Support of Precision Medicine Book
Author : National Academies of Sciences, Engineering, and Medicine,Division on Earth and Life Studies,Institute for Laboratory Animal Research,Roundtable on Science and Welfare in Laboratory Animal Use
Publisher : National Academies Press
Release : 2018-05-29
ISBN : 0309471192
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

Precision medicine is focused on the individual and will require the rapid and accurate identification and prioritization of causative factors of disease. To move forward and accelerate the delivery of the anticipated benefits of precision medicine, developing predictable, reproducible, and reliable animal models will be essential. In order to explore the topic of animal-based research and its relevance to precision medicine, the National Academies of Sciences, Engineering, and Medicine convened a 2-day workshop on October 5 and 6, 2017. The workshop was designed to focus on the development, implementation, and interpretation of model organisms to advance and accelerate the field of precision medicine. Participants examined the extent to which next-generation animal models, designed using patient data and phenotyping platforms targeted to reveal and inform disease mechanisms, will be essential to the successful implementation of precision medicine. This publication summarizes the presentations and discussions from the workshop.

Rigor Mortis

Rigor Mortis Book
Author : Richard Harris
Publisher : Hachette UK
Release : 2017-04-04
ISBN : 046509791X
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

An essential book to understanding whether the new miracle cure is good science or simply too good to be true American taxpayers spend $30 billion annually funding biomedical research, but over half of these studies can't be replicated due to poor experimental design, improper methods, and sloppy statistics. Bad science doesn't just hold back medical progress, it can sign the equivalent of a death sentence for terminal patients. In Rigor Mortis, Richard Harris explores these urgent issues with vivid anecdotes, personal stories, and interviews with the top biomedical researchers. We need to fix our dysfunctional biomedical system -- before it's too late.

The Practice of Reproducible Research

The Practice of Reproducible Research Book
Author : Justin Kitzes
Publisher : Univ of California Press
Release : 2017-10-17
ISBN : 0520967771
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

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.

Experimental Design for Laboratory Biologists

Experimental Design for Laboratory Biologists Book
Author : Stanley E. Lazic
Publisher : Cambridge University Press
Release : 2016-12-08
ISBN : 1107074290
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

A guide to designing lab-based biological experiments that have low bias, high precision and widely applicable results.

Good Research Practice in Non Clinical Pharmacology and Biomedicine

Good Research Practice in Non Clinical Pharmacology and Biomedicine Book
Author : Anton Bespalov,Martin C. Michel,Thomas Steckler
Publisher : Springer Nature
Release : 2020-01-01
ISBN : 3030336565
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

This open access book, published under a CC BY 4.0 license in the Pubmed indexed book series Handbook of Experimental Pharmacology, provides up-to-date information on best practice to improve experimental design and quality of research in non-clinical pharmacology and biomedicine.

Open Science by Design

Open Science by Design Book
Author : National Academies of Sciences, Engineering, and Medicine,Policy and Global Affairs,Board on Research Data and Information,Committee on Toward an Open Science Enterprise
Publisher : National Academies Press
Release : 2018-09-09
ISBN : 0309476240
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

Openness and sharing of information are fundamental to the progress of science and to the effective functioning of the research enterprise. The advent of scientific journals in the 17th century helped power the Scientific Revolution by allowing researchers to communicate across time and space, using the technologies of that era to generate reliable knowledge more quickly and efficiently. Harnessing today's stunning, ongoing advances in information technologies, the global research enterprise and its stakeholders are moving toward a new open science ecosystem. Open science aims to ensure the free availability and usability of scholarly publications, the data that result from scholarly research, and the methodologies, including code or algorithms, that were used to generate those data. Open Science by Design is aimed at overcoming barriers and moving toward open science as the default approach across the research enterprise. This report explores specific examples of open science and discusses a range of challenges, focusing on stakeholder perspectives. It is meant to provide guidance to the research enterprise and its stakeholders as they build strategies for achieving open science and take the next steps.

Introduction to the Responsible Conduct of Research rev Ed

Introduction to the Responsible Conduct of Research  rev  Ed    Book
Author : Nicholas H. Steneck
Publisher : DIANE Publishing
Release : 2009-09
ISBN : 143791456X
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

This report seeks to supplement existing resources by making a comprehensive overview of basic rules of the road for responsible research available to all U.S. Public Health Service-funded researchers. It has been prepared with the needs of small and mid-size research and institutions and beginning researchers in mind, but it may be used in other settings. Illustrations.

Fostering Integrity in Research

Fostering Integrity in Research Book
Author : National Academies of Sciences, Engineering, and Medicine,Policy and Global Affairs,Committee on Science, Engineering, Medicine, and Public Policy,Committee on Responsible Science
Publisher : National Academies Press
Release : 2018-01-13
ISBN : 0309391253
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

The integrity of knowledge that emerges from research is based on individual and collective adherence to core values of objectivity, honesty, openness, fairness, accountability, and stewardship. Integrity in science means that the organizations in which research is conducted encourage those involved to exemplify these values in every step of the research process. Understanding the dynamics that support â€" or distort â€" practices that uphold the integrity of research by all participants ensures that the research enterprise advances knowledge. The 1992 report Responsible Science: Ensuring the Integrity of the Research Process evaluated issues related to scientific responsibility and the conduct of research. It provided a valuable service in describing and analyzing a very complicated set of issues, and has served as a crucial basis for thinking about research integrity for more than two decades. However, as experience has accumulated with various forms of research misconduct, detrimental research practices, and other forms of misconduct, as subsequent empirical research has revealed more about the nature of scientific misconduct, and because technological and social changes have altered the environment in which science is conducted, it is clear that the framework established more than two decades ago needs to be updated. Responsible Science served as a valuable benchmark to set the context for this most recent analysis and to help guide the committee's thought process. Fostering Integrity in Research identifies best practices in research and recommends practical options for discouraging and addressing research misconduct and detrimental research practices.

Metabolomics for Biomedical Research

Metabolomics for Biomedical Research Book
Author : Jerzy Adamski, PhD
Publisher : Academic Press
Release : 2020-04-04
ISBN : 0128127848
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

Metabolomics for Biomedical Research brings together recent progress on study design, analytics, biostatistics and bioinformatics for the success of metabolomics research. Metabolomics represents a very interdisciplinary research prominent in the functional analyses of living systems; hence, this book focuses on translation and medical aspects. The book discusses topics such as biomarkers and their requirements to be used in medical research, with the parameters and approaches on how to validate their quality; and animal models and other approaches, as stem cells and organoid culture. Additionally, it explains how metabolomics may be applied in prediction of individual response to drug or disease progression. This book is a valuable source for researchers on systems biology and other members of biomedical field interested in metabolism-oriented studies for medical research. Focuses on metabolomics in translational and medical research Provides basics for, and concepts of, contemporary translational personalized medicine research with metabolomics Brings the major recent progresses on design, analytics, biostatistics and bioinformatics relating to the success of metabolomics research

Towards Bayesian Model Based Demography

Towards Bayesian Model Based Demography Book
Author : Jakub Bijak
Publisher : Springer Nature
Release : 2022
ISBN : 303083039X
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

This open access book presents a ground-breaking approach to developing micro-foundations for demography and migration studies. It offers a unique and novel methodology for creating empirically grounded agent-based models of international migration - one of the most uncertain population processes and a top-priority policy area. The book discusses in detail the process of building a simulation model of migration, based on a population of intelligent, cognitive agents, their networks and institutions, all interacting with one another. The proposed model-based approach integrates behavioural and social theory with formal modelling, by embedding the interdisciplinary modelling process within a wider inductive framework based on the Bayesian statistical reasoning. Principles of uncertainty quantification are used to devise innovative computer-based simulations, and to learn about modelling the simulated individuals and the way they make decisions. The identified knowledge gaps are subsequently filled with information from dedicated laboratory experiments on cognitive aspects of human decision-making under uncertainty. In this way, the models are built iteratively, from the bottom up, filling an important epistemological gap in migration studies, and social sciences more broadly.

Basic Science Methods for Clinical Researchers

Basic Science Methods for Clinical Researchers Book
Author : Morteza Jalali,Francesca Yvonne Louise Saldanha,Mehdi Jalali
Publisher : Academic Press
Release : 2017-03-31
ISBN : 012803078X
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

Basic Science Methods for Clinical Researchers addresses the specific challenges faced by clinicians without a conventional science background. The aim of the book is to introduce the reader to core experimental methods commonly used to answer questions in basic science research and to outline their relative strengths and limitations in generating conclusive data. This book will be a vital companion for clinicians undertaking laboratory-based science. It will support clinicians in the pursuit of their academic interests and in making an original contribution to their chosen field. In doing so, it will facilitate the development of tomorrow’s clinician scientists and future leaders in discovery science. Serves as a helpful guide for clinical researchers who lack a conventional science background Organized around research themes pertaining to key biological molecules, from genes, to proteins, cells, and model organisms Features protocols, techniques for troubleshooting common problems, and an explanation of the advantages and limitations of a technique in generating conclusive data Appendices provide resources for practical research methodology, including legal frameworks for using stem cells and animals in the laboratory, ethical considerations, and good laboratory practice (GLP)

Statistical Challenges in Assessing and Fostering the Reproducibility of Scientific Results

Statistical Challenges in Assessing and Fostering the Reproducibility of Scientific Results Book
Author : National Academies of Sciences, Engineering, and Medicine,Division on Engineering and Physical Sciences,Board on Mathematical Sciences and Their Applications,Committee on Applied and Theoretical Statistics
Publisher : National Academies Press
Release : 2016-03-29
ISBN : 0309392020
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

Questions about the reproducibility of scientific research have been raised in numerous settings and have gained visibility through several high-profile journal and popular press articles. Quantitative issues contributing to reproducibility challenges have been considered (including improper data measurement and analysis, inadequate statistical expertise, and incomplete data, among others), but there is no clear consensus on how best to approach or to minimize these problems. A lack of reproducibility of scientific results has created some distrust in scientific findings among the general public, scientists, funding agencies, and industries. While studies fail for a variety of reasons, many factors contribute to the lack of perfect reproducibility, including insufficient training in experimental design, misaligned incentives for publication and the implications for university tenure, intentional manipulation, poor data management and analysis, and inadequate instances of statistical inference. The workshop summarized in this report was designed not to address the social and experimental challenges but instead to focus on the latter issues of improper data management and analysis, inadequate statistical expertise, incomplete data, and difficulties applying sound statistic inference to the available data. Many efforts have emerged over recent years to draw attention to and improve reproducibility of scientific work. This report uniquely focuses on the statistical perspective of three issues: the extent of reproducibility, the causes of reproducibility failures, and the potential remedies for these failures.

Guidance for the Description of Animal Research in Scientific Publications

Guidance for the Description of Animal Research in Scientific Publications Book
Author : National Research Council,Division on Earth and Life Studies,Institute for Laboratory Animal Research
Publisher : National Academies Press
Release : 2011-09-16
ISBN : 030921954X
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

The publication of research articles involving animal studies is central to many disciplines in science and biomedicine. Effective descriptions in such publications enable researchers to interpret the data, evaluate and replicate findings, and move the science forward. Analyses of published studies with research animals have demonstrated numerous deficiencies in the reporting of details in research methods for animal studies. Considerable variation in the amount of information required by scientific publications and reported by authors undermines this basic scientific principle and results in the unnecessary use of animals and other resources in failed efforts to reproduce study results. Guidance for the Description of Animal Research in Scientific Publications outlines the information that should be included in scientific papers regarding the animal studies to ensure that the study can be replicated. The report urges journal editors to actively promote effective and ethical research by encouraging the provision of sufficient information. Examples of this information include: conditions of housing and husbandry, genetic nomenclature, microbial status, detailed experimental manipulations, and handling and use of pharmaceuticals. Inclusion of this information will enable assessment and interpretation of research findings and advancement of knowledge based on reproducible results.

Interpreting Biomedical Science

Interpreting Biomedical Science Book
Author : Ülo Maiväli
Publisher : Academic Press
Release : 2015-06-12
ISBN : 0124199569
Language : En, Es, Fr & De

DOWNLOAD

Book Description :

Interpreting Biomedical Science: Experiment, Evidence, and Belief discusses what can go wrong in biological science, providing an unbiased view and cohesive understanding of scientific methods, statistics, data interpretation, and scientific ethics that are illustrated with practical examples and real-life applications. Casting a wide net, the reader is exposed to scientific problems and solutions through informed perspectives from history, philosophy, sociology, and the social psychology of science. The book shows the differences and similarities between disciplines and different eras and illustrates the concept that while sound methodology is necessary for the progress of science, we cannot succeed without a right culture of doing things. Features theoretical concepts accompanied by examples from biological literature Contains an introduction to various methods, with an emphasis on statistical hypothesis testing Presents a clear argument that ties the motivations and ethics of individual scientists to the success of their science Provides recommendations on how to safeguard against scientific misconduct, fraud, and retractions Arms young scientists with practical knowledge that they can use every day